Overall Podocnemis unifilis is Endangered (“Em perigo” /
+“En peligro”) based on future population size reduction criteria -
+A3bd.
Within 3 generations (35 years) the adult female population is predicted
to decline by 50.7% in the future (25 and 75% quantile range: 51.8 -
49.7 % decline). Within 100 years the adult female population is
@@ -98,19 +99,20 @@ Map
around the map to find the area of interest. Then zoom in again to check
the coloured points.
If you find any errors (e.g. points where Podocnemis
-unifilis does not occur) please raise an issue at: https://github.com/darrennorris/testmap/issues .
+unifilis does not occur, points where species is “Endangered” but
+populations are increasing etc) please raise an issue at: https://github.com/darrennorris/testmap/issues .
When you zoom in you will see shaded points. The points follow rivers
produced by remote sensing (Free-flowing Rivers, 2019: https://doi.org/10.1038/s41586-019-1111-9). To
facilitate online viewing the mapped points are a subset at intervals of
approximately 10 kilometers. The points are brown where populations are
predicted to decline by 50% or more within 3 generations (35 years).
-Brown points therefore represent rivers where the species is Endangered,
-following the IUCN Red List population size reduction criteria - A3bd
-(https://www.iucnredlist.org/about/faqs).
-The points represent rivers where Podocnemis unifilis
-females are likely to nest and that are likely to be accessible to
-people by boat.
+Brown points therefore represent rivers where the species is Endangered
+(“Em perigo” / “En peligro”), following the IUCN Red List population
+size reduction criteria - A3bd (https://www.iucnredlist.org/about/faqs).
+The points are locations along rivers where Podocnemis
+unifilis females are likely to nest and that are likely to be
+accessible to people by boat.
Methods
diff --git a/pkgdown.yml b/pkgdown.yml
index 6218707..0ce81d7 100644
--- a/pkgdown.yml
+++ b/pkgdown.yml
@@ -4,7 +4,7 @@ pkgdown_sha: ~
articles:
Interactive-map: Interactive-map.html
testmap: testmap.html
-last_built: 2024-08-08T12:57Z
+last_built: 2024-08-08T14:08Z
urls:
reference: https://darrennorris.github.io/testmap/reference
article: https://darrennorris.github.io/testmap/articles
diff --git a/search.json b/search.json
index 23971ce..a855d5a 100644
--- a/search.json
+++ b/search.json
@@ -1 +1 @@
-[{"path":"https://darrennorris.github.io/testmap/LICENSE.html","id":null,"dir":"","previous_headings":"","what":"GNU General Public License","title":"GNU General Public License","text":"Version 3, 29 June 2007Copyright © 2007 Free Software Foundation, Inc. Everyone permitted copy distribute verbatim copies license document, changing allowed.","code":""},{"path":"https://darrennorris.github.io/testmap/LICENSE.html","id":"preamble","dir":"","previous_headings":"","what":"Preamble","title":"GNU General Public License","text":"GNU General Public License free, copyleft license software kinds works. licenses software practical works designed take away freedom share change works. contrast, GNU General Public License intended guarantee freedom share change versions program–make sure remains free software users. , Free Software Foundation, use GNU General Public License software; applies also work released way authors. can apply programs, . speak free software, referring freedom, price. 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Definitions","title":"GNU General Public License","text":"“License” refers version 3 GNU General Public License. “Copyright” also means copyright-like laws apply kinds works, semiconductor masks. “Program” refers copyrightable work licensed License. licensee addressed “”. “Licensees” “recipients” may individuals organizations. “modify” work means copy adapt part work fashion requiring copyright permission, making exact copy. resulting work called “modified version” earlier work work “based ” earlier work. “covered work” means either unmodified Program work based Program. “propagate” work means anything , without permission, make directly secondarily liable infringement applicable copyright law, except executing computer modifying private copy. Propagation includes copying, distribution (without modification), making available public, countries activities well. “convey” work means kind propagation enables parties make receive copies. 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Source Code","title":"GNU General Public License","text":"“source code” work means preferred form work making modifications . “Object code” means non-source form work. “Standard Interface” means interface either official standard defined recognized standards body, , case interfaces specified particular programming language, one widely used among developers working language. “System Libraries” executable work include anything, work whole, () included normal form packaging Major Component, part Major Component, (b) serves enable use work Major Component, implement Standard Interface implementation available public source code form. “Major Component”, context, means major essential component (kernel, window system, ) specific operating system () executable work runs, compiler used produce work, object code interpreter used run . “Corresponding Source” work object code form means source code needed generate, install, (executable work) run object code modify work, including scripts control activities. 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License explicitly affirms unlimited permission run unmodified Program. output running covered work covered License output, given content, constitutes covered work. License acknowledges rights fair use equivalent, provided copyright law. may make, run propagate covered works convey, without conditions long license otherwise remains force. may convey covered works others sole purpose make modifications exclusively , provide facilities running works, provided comply terms License conveying material control copyright. thus making running covered works must exclusively behalf, direction control, terms prohibit making copies copyrighted material outside relationship . Conveying circumstances permitted solely conditions stated . Sublicensing allowed; section 10 makes unnecessary.","code":""},{"path":"https://darrennorris.github.io/testmap/LICENSE.html","id":"id_3-protecting-users-legal-rights-from-anti-circumvention-law","dir":"","previous_headings":"TERMS AND CONDITIONS","what":"3. Protecting Users’ Legal Rights From Anti-Circumvention Law","title":"GNU General Public License","text":"covered work shall deemed part effective technological measure applicable law fulfilling obligations article 11 WIPO copyright treaty adopted 20 December 1996, similar laws prohibiting restricting circumvention measures. convey covered work, waive legal power forbid circumvention technological measures extent circumvention effected exercising rights License respect covered work, disclaim intention limit operation modification work means enforcing, work’s users, third parties’ legal rights forbid circumvention technological measures.","code":""},{"path":"https://darrennorris.github.io/testmap/LICENSE.html","id":"id_4-conveying-verbatim-copies","dir":"","previous_headings":"TERMS AND CONDITIONS","what":"4. Conveying Verbatim Copies","title":"GNU General Public License","text":"may convey verbatim copies Program’s source code receive , medium, provided conspicuously appropriately publish copy appropriate copyright notice; keep intact notices stating License non-permissive terms added accord section 7 apply code; keep intact notices absence warranty; give recipients copy License along Program. may charge price price copy convey, may offer support warranty protection fee.","code":""},{"path":"https://darrennorris.github.io/testmap/LICENSE.html","id":"id_5-conveying-modified-source-versions","dir":"","previous_headings":"TERMS AND CONDITIONS","what":"5. 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Conveying Non-Source Forms","title":"GNU General Public License","text":"may convey covered work object code form terms sections 4 5, provided also convey machine-readable Corresponding Source terms License, one ways: ) Convey object code , embodied , physical product (including physical distribution medium), accompanied Corresponding Source fixed durable physical medium customarily used software interchange. b) Convey object code , embodied , physical product (including physical distribution medium), accompanied written offer, valid least three years valid long offer spare parts customer support product model, give anyone possesses object code either (1) copy Corresponding Source software product covered License, durable physical medium customarily used software interchange, price reasonable cost physically performing conveying source, (2) access copy Corresponding Source network server charge. c) Convey individual copies object code copy written offer provide Corresponding Source. alternative allowed occasionally noncommercially, received object code offer, accord subsection 6b. d) Convey object code offering access designated place (gratis charge), offer equivalent access Corresponding Source way place charge. need require recipients copy Corresponding Source along object code. place copy object code network server, Corresponding Source may different server (operated third party) supports equivalent copying facilities, provided maintain clear directions next object code saying find Corresponding Source. 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Termination","title":"GNU General Public License","text":"may propagate modify covered work except expressly provided License. attempt otherwise propagate modify void, automatically terminate rights License (including patent licenses granted third paragraph section 11). However, cease violation License, license particular copyright holder reinstated () provisionally, unless copyright holder explicitly finally terminates license, (b) permanently, copyright holder fails notify violation reasonable means prior 60 days cessation. Moreover, license particular copyright holder reinstated permanently copyright holder notifies violation reasonable means, first time received notice violation License (work) copyright holder, cure violation prior 30 days receipt notice. 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Interpretation of Sections 15 and 16","title":"GNU General Public License","text":"disclaimer warranty limitation liability provided given local legal effect according terms, reviewing courts shall apply local law closely approximates absolute waiver civil liability connection Program, unless warranty assumption liability accompanies copy Program return fee. END TERMS CONDITIONS","code":""},{"path":"https://darrennorris.github.io/testmap/LICENSE.html","id":"how-to-apply-these-terms-to-your-new-programs","dir":"","previous_headings":"","what":"How to Apply These Terms to Your New Programs","title":"GNU General Public License","text":"develop new program, want greatest possible use public, best way achieve make free software everyone can redistribute change terms. , attach following notices program. safest attach start source file effectively state exclusion warranty; file least “copyright” line pointer full notice found. Also add information contact electronic paper mail. program terminal interaction, make output short notice like starts interactive mode: hypothetical commands show w show c show appropriate parts General Public License. course, program’s commands might different; GUI interface, use “box”. also get employer (work programmer) school, , sign “copyright disclaimer” program, necessary. information , apply follow GNU GPL, see . GNU General Public License permit incorporating program proprietary programs. program subroutine library, may consider useful permit linking proprietary applications library. want , use GNU Lesser General Public License instead License. first, please read .","code":" Copyright (C) This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version. This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details. You should have received a copy of the GNU General Public License along with this program. If not, see . Copyright (C) This program comes with ABSOLUTELY NO WARRANTY; for details type 'show w'. This is free software, and you are welcome to redistribute it under certain conditions; type 'show c' for details."},{"path":"https://darrennorris.github.io/testmap/articles/Interactive-map.html","id":"map","dir":"Articles","previous_headings":"","what":"Map","title":"Population change map","text":"Due number points, map can become slow respond zoom . Zoom level showing fewer points can pan around map find area interest. zoom check coloured points. find errors (e.g. points Podocnemis unifilis occur) please raise issue : https://github.com/darrennorris/testmap/issues . zoom see shaded points. points follow rivers produced remote sensing (Free-flowing Rivers, 2019: https://doi.org/10.1038/s41586-019-1111-9). facilitate online viewing mapped points subset intervals approximately 10 kilometers. points brown populations predicted decline 50% within 3 generations (35 years). Brown points therefore represent rivers species Endangered, following IUCN Red List population size reduction criteria - A3bd (https://www.iucnredlist.org//faqs). points represent rivers Podocnemis unifilis females likely nest likely accessible people boat.","code":""},{"path":"https://darrennorris.github.io/testmap/articles/Interactive-map.html","id":"methods","dir":"Articles","previous_headings":"","what":"Methods","title":"Population change map","text":"analysis developed : https://github.com/darrennorris/TACAR, methods used extension Norris et. al. 2019 includes: Stochastic population projections. Future impacts populations caused human acessibility (hunting) actions reduce river connectivity.","code":""},{"path":"https://darrennorris.github.io/testmap/articles/Interactive-map.html","id":"summaries","dir":"Articles","previous_headings":"","what":"Summaries","title":"Population change map","text":"summary map results presented . include summaries country major basin using full set points 1 kilometer intervals. date subpopulations identified due lack comprehensive genetic analysis. Summaries basin provided expected represent important management units predominantly aquatic species. implementation conservation actions regulated national levels summaries also provided country. Results include size extent future population changes. column “population change” difference number adult females 3 generations (35 years). consistent population size reduction criteria used IUCN Red List. column “River length Endangered”, proportion river length populations declined 50% , represents spatial extent future changes.","code":""},{"path":"https://darrennorris.github.io/testmap/articles/Interactive-map.html","id":"summary-by-country-","dir":"Articles","previous_headings":"Summaries","what":"Summary by country.","title":"Population change map","text":"Table 1. Population changes country.","code":""},{"path":"https://darrennorris.github.io/testmap/articles/Interactive-map.html","id":"summary-by-basin-","dir":"Articles","previous_headings":"Summaries","what":"Summary by basin.","title":"Population change map","text":"table “Amazon” includes Amazon Basin together Araguaia-Tocantins Basin Brazil. “Coastal North” covers Guianas includes Essequibo Basin. “Coastal South” includes part Maranhão State Brazil. Table 2. Population changes basin.","code":""},{"path":"https://darrennorris.github.io/testmap/articles/Interactive-map.html","id":"summary-by-major-basins-and-countries-","dir":"Articles","previous_headings":"Summaries","what":"Summary by major basins and countries.","title":"Population change map","text":"Table 3. Population changes country basin. table values can also presented graphically. enables clearer understanding patterns. Figure 1. Population changes across basins contries. grey bars figure show predicted population changes basin country combination. width bars proportional river length log scale. labels bar show river lengths thousands kilometers (e.g. “22.2” 22,200 kilometers). background shading follows gradient Near Threatened (“-0.2” 20% loss) Critically Endangered (“-0.8” 80% loss). Amazon Basin Brazil represents largest proportion rivers (51.1%). Considering spatial variation threats genetics, probably useful include Amazon Basin seperated major basins (Madeira, Negro, etc). summaries presented provide general overview enable assessment results, overall patterns change Amazon basin seperated .","code":""},{"path":"https://darrennorris.github.io/testmap/articles/Interactive-map.html","id":"next-steps","dir":"Articles","previous_headings":"","what":"Next steps","title":"Population change map","text":"Consult researchers check validate mapped results. Evaluate future impact conservation actions. Apply species.","code":""},{"path":"https://darrennorris.github.io/testmap/articles/testmap.html","id":"load-packages","dir":"Articles","previous_headings":"","what":"Load packages","title":"Getting started: make a map","text":"","code":"library(testmap) library(dplyr) library(sf) library(leaflet) library(leafem)"},{"path":"https://darrennorris.github.io/testmap/articles/testmap.html","id":"make-map","dir":"Articles","previous_headings":"","what":"Make map","title":"Getting started: make a map","text":"example shows map Podocnemis unifilis Endangered French Guiana. country chosen illustrative purposes relatively river points.","code":"## River points for specific country. points_bau4326 <- points_bau_ffr_map |> dplyr::filter(COUNTRY == \"French Guiana\") |> # country sf::st_as_sf(crs = 3395) |> sf::st_transform(4326) levels(points_bau4326$flag_50_35y) <- c(\"No\", \"Yes\") # colour palette leaf_pal <- colorFactor( palette = c(\"#7274C1\", \"#A3720E\"), domain = points_bau4326$flag_50_35y ) # interactive map. Options added to make panning smoother.... leaflet::leaflet(points_bau4326, options = leafletOptions(preferCanvas = TRUE)) |> # Basemap addTiles(options = tileOptions( updateWhenZooming = FALSE, # map won't update tiles until zoom is done updateWhenIdle = TRUE)) |> # Circles when zoom in. addCircles(color = ~leaf_pal(flag_50_35y), group = \"points_bau4326_low\" ) |> # Markers with cluster options for smoother panning. addCircleMarkers(color = ~leaf_pal(flag_50_35y), stroke = FALSE, fillOpacity = 0.4, clusterOptions = markerClusterOptions(), group = \"points_bau4326\" ) |> addLegend(\"bottomright\", pal = leaf_pal, title=\"Endangered\", values = ~flag_50_35y, group = \"en_legend\") |> groupOptions(\"points_bau4326\", zoomLevels = 1:6) |> groupOptions(\"points_bau4326_low\", zoomLevels = 7:15) |> addScaleBar() |> leafem::addMouseCoordinates()"},{"path":"https://darrennorris.github.io/testmap/authors.html","id":null,"dir":"","previous_headings":"","what":"Authors","title":"Authors and Citation","text":"Darren Norris. Author, maintainer.","code":""},{"path":"https://darrennorris.github.io/testmap/authors.html","id":"citation","dir":"","previous_headings":"","what":"Citation","title":"Authors and Citation","text":"Norris D (2024). testmap: Population projection maps Yellow-spotted River Turtle. R package version 0.0.0.9000, https://darrennorris.github.io/testmap/, https://github.com/darrennorris/testmap.","code":"@Manual{, title = {testmap: Population projection maps for the Yellow-spotted River Turtle}, author = {Darren Norris}, year = {2024}, note = {R package version 0.0.0.9000, https://darrennorris.github.io/testmap/}, url = {https://github.com/darrennorris/testmap}, }"},{"path":"https://darrennorris.github.io/testmap/index.html","id":"testmap","dir":"","previous_headings":"","what":"Population projection maps for the Yellow-spotted River Turtle","title":"Population projection maps for the Yellow-spotted River Turtle","text":"goal testmap map future population changes Yellow-spotted river turtle (Podocnemis unifilis). predicted future changes female-, stochastic stage-based matrix population projection models, developed : https://github.com/darrennorris/TACAR","code":""},{"path":"https://darrennorris.github.io/testmap/index.html","id":"objectives","dir":"","previous_headings":"","what":"Objectives","title":"Population projection maps for the Yellow-spotted River Turtle","text":"maps used Provide updated assesment threatened species . Inform development implement improvements modelling process.","code":""},{"path":"https://darrennorris.github.io/testmap/index.html","id":"results","dir":"","previous_headings":"","what":"Results","title":"Population projection maps for the Yellow-spotted River Turtle","text":"Summaries results including maps projected future changes can found online. 3 generation. Predicted changes 35 years: https://darrennorris.github.io/testmap/articles/Interactive-map.html","code":""},{"path":"https://darrennorris.github.io/testmap/index.html","id":"installation","dir":"","previous_headings":"","what":"Installation","title":"Population projection maps for the Yellow-spotted River Turtle","text":"can download data check visualise using R. testmap submitted CRAN data files large package therefore pass “cran” checks. need install testmap like :","code":"install.packages(\"remotes\") remotes::install_github(\"darrennorris/testmap\")"},{"path":"https://darrennorris.github.io/testmap/index.html","id":"example","dir":"","previous_headings":"","what":"Example","title":"Population projection maps for the Yellow-spotted River Turtle","text":"example shows summary future changes Podocnemis unifilis populations different countries. Another example showing Podocnemis unifilis Endangered : https://darrennorris.github.io/testmap/articles/testmap.html Package developed built using following guides: Fan Wang: https://fanwangecon.github.io/PkgTestR/articles/ffv_pkgdown_github.html Emil Hvitfeldt: https://emilhvitfeldt.com/post/2018-09-02-usethis-workflow--package-development/ Saskia O: https://www.marinedatascience.co/blog/2020/01/09/checklist--r-package-re-submissions--cran/","code":"library(testmap) library(dplyr) ## Summary by country. points_bau_ffr |> dplyr::mutate(flag_EN = if_else(fem_diff_t35 <= -0.5, 1, 0)) |> dplyr::group_by(COUNTRY) |> dplyr::summarise(pop_start = sum(fem_t0), pop_end = sum(fem_t35), pop_change = round(((sum(fem_t35) - sum(fem_t0)) / sum(fem_t0)), 3), length_river = n(), length_endangered = sum((flag_EN))) |> dplyr::ungroup() |> dplyr::mutate(proportion_endangered = round((length_endangered / length_river), 2)) |> dplyr::mutate(threat_status = case_when(pop_change <= -0.8 ~ \"Critically Endangered\", pop_change <= -0.5 ~ \"Endangered\", pop_change <= -0.3 ~ \"Vulnerable\", pop_change <= -0.2 ~ \"Near Threatened\")) #> # A tibble: 9 × 8 #> COUNTRY pop_start pop_end pop_change length_river length_endangered #> #> 1 Bolivia 222170 103830. -0.533 22217 15505 #> 2 Brazil 1905550 934926. -0.509 190555 115489 #> 3 Colombia 385520 204235. -0.47 38552 23628 #> 4 Ecuador 83020 25106. -0.698 8302 7066 #> 5 French Guiana 32980 18580. -0.437 3298 2048 #> 6 Guyana 73720 52144. -0.293 7372 3263 #> 7 Peru 473630 173911. -0.633 47363 36693 #> 8 Suriname 57560 40255. -0.301 5756 2643 #> 9 Venezuela 300220 188560. -0.372 30022 16714 #> # ℹ 2 more variables: proportion_endangered , threat_status "},{"path":"https://darrennorris.github.io/testmap/reference/points_bau.html","id":null,"dir":"Reference","previous_headings":"","what":"Points along rivers. — points_bau","title":"Points along rivers. — points_bau","text":"points show projected population changes along rivers. Projections generated TACAR (https://github.com/darrennorris/TACAR). population projections updated extended version published Norris et. al. 2019 (https://doi.org/10.1016/j.biocon.2019.02.022). location South America. coord. ref WGS 84 (EPSG:3395).","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Points along rivers. — points_bau","text":"","code":"points_bau"},{"path":"https://darrennorris.github.io/testmap/reference/points_bau.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Points along rivers. — points_bau","text":"points_bau dataframe 215849 points 13 fields, including: BASIN_N Name major basin. subbasn Name subbasn. geometry sf geometry.","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Points along rivers. — points_bau","text":"https://github.com/darrennorris/TACAR","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Points along rivers. — points_bau","text":"lot points along rivers.","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Points along rivers. — points_bau","text":"Norris, D., et. al. (2019). Prospects freshwater turtle population recovery catalyzed pan-Amazonian community-based management. Biological Conservation, 233, https://doi.org/10.1016/j.biocon.2019.02.022.","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Points along rivers. — points_bau","text":"","code":"if (FALSE) { # \\dontrun{ # convert to sf object sf_points_bau <- sf::st_as_sf(points_bau, crs = 3395) } # }"},{"path":"https://darrennorris.github.io/testmap/reference/points_bau_ffr.html","id":null,"dir":"Reference","previous_headings":"","what":"Points along Free-flowing rivers. — points_bau_ffr","title":"Points along Free-flowing rivers. — points_bau_ffr","text":"points show projected population changes along rivers. Projections generated TACAR (https://github.com/darrennorris/TACAR). population projections updated extended version published Norris et. al. 2019 (https://doi.org/10.1016/j.biocon.2019.02.022). location South America. coord. ref WGS 84 (EPSG:3395).","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau_ffr.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Points along Free-flowing rivers. — points_bau_ffr","text":"","code":"points_bau_ffr"},{"path":"https://darrennorris.github.io/testmap/reference/points_bau_ffr.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Points along Free-flowing rivers. — points_bau_ffr","text":"points_bau_ffr dataframe 353437 points 15 fields, including: BASIN_NAME Name major basin. subbasn Name subbasn. geom sf geometry column.","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau_ffr.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Points along Free-flowing rivers. — points_bau_ffr","text":"https://github.com/darrennorris/TACAR","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau_ffr.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Points along Free-flowing rivers. — points_bau_ffr","text":"lot points along rivers.","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau_ffr.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Points along Free-flowing rivers. — points_bau_ffr","text":"Norris, D., et. al. (2019). Prospects freshwater turtle population recovery catalyzed pan-Amazonian community-based management. Biological Conservation, 233, https://doi.org/10.1016/j.biocon.2019.02.022. Grill, G., Lehner, B., Thieme, M. et al. (2019) Mapping world’s free-flowing rivers. Nature 569, 215–221, https://doi.org/10.1038/s41586-019-1111-9.","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau_ffr.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Points along Free-flowing rivers. — points_bau_ffr","text":"","code":"if (FALSE) { # \\dontrun{ # convert to sf object sf_points_bau_ffr <- sf::st_as_sf(points_bau_ffr, crs = 3395) } # }"},{"path":"https://darrennorris.github.io/testmap/reference/points_bau_ffr_map.html","id":null,"dir":"Reference","previous_headings":"","what":"Subset of points along Free-flowing rivers. — points_bau_ffr_map","title":"Subset of points along Free-flowing rivers. — points_bau_ffr_map","text":"points show projected population changes along rivers. Projections generated TACAR (https://github.com/darrennorris/TACAR). population projections updated extended version published Norris et. al. 2019 (https://doi.org/10.1016/j.biocon.2019.02.022). location South America. coord. ref WGS 84 (EPSG:3395).","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau_ffr_map.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Subset of points along Free-flowing rivers. — points_bau_ffr_map","text":"","code":"points_bau_ffr_map"},{"path":"https://darrennorris.github.io/testmap/reference/points_bau_ffr_map.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Subset of points along Free-flowing rivers. — points_bau_ffr_map","text":"points_bau_ffr_map dataframe 35344 points 15 fields, including: BASIN_NAME Name major basin. subbasn Name subbasn. geom sf geometry column.","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau_ffr_map.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Subset of points along Free-flowing rivers. — points_bau_ffr_map","text":"https://github.com/darrennorris/TACAR","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau_ffr_map.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Subset of points along Free-flowing rivers. — points_bau_ffr_map","text":"10% subset, includes one ten rows points_bau_ffr.","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau_ffr_map.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Subset of points along Free-flowing rivers. — points_bau_ffr_map","text":"Norris, D., et. al. (2019). Prospects freshwater turtle population recovery catalyzed pan-Amazonian community-based management. Biological Conservation, 233, https://doi.org/10.1016/j.biocon.2019.02.022. Grill, G., Lehner, B., Thieme, M. et al. (2019) Mapping world’s free-flowing rivers. Nature 569, 215–221, https://doi.org/10.1038/s41586-019-1111-9.","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau_ffr_map.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Subset of points along Free-flowing rivers. — points_bau_ffr_map","text":"","code":"if (FALSE) { # \\dontrun{ # convert to sf object sf_points_bau_ffr_map <- sf::st_as_sf(points_bau_ffr_map, crs = 3395) } # }"}]
+[{"path":"https://darrennorris.github.io/testmap/LICENSE.html","id":null,"dir":"","previous_headings":"","what":"GNU General Public License","title":"GNU General Public License","text":"Version 3, 29 June 2007Copyright © 2007 Free Software Foundation, Inc. Everyone permitted copy distribute verbatim copies license document, changing allowed.","code":""},{"path":"https://darrennorris.github.io/testmap/LICENSE.html","id":"preamble","dir":"","previous_headings":"","what":"Preamble","title":"GNU General Public License","text":"GNU General Public License free, copyleft license software kinds works. licenses software practical works designed take away freedom share change works. contrast, GNU General Public License intended guarantee freedom share change versions program–make sure remains free software users. , Free Software Foundation, use GNU General Public License software; applies also work released way authors. can apply programs, . speak free software, referring freedom, price. 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Patents","title":"GNU General Public License","text":"“contributor” copyright holder authorizes use License Program work Program based. work thus licensed called contributor’s “contributor version”. contributor’s “essential patent claims” patent claims owned controlled contributor, whether already acquired hereafter acquired, infringed manner, permitted License, making, using, selling contributor version, include claims infringed consequence modification contributor version. purposes definition, “control” includes right grant patent sublicenses manner consistent requirements License. contributor grants non-exclusive, worldwide, royalty-free patent license contributor’s essential patent claims, make, use, sell, offer sale, import otherwise run, modify propagate contents contributor version. following three paragraphs, “patent license” express agreement commitment, however denominated, enforce patent (express permission practice patent covenant sue patent infringement). “grant” patent license party means make agreement commitment enforce patent party. convey covered work, knowingly relying patent license, Corresponding Source work available anyone copy, free charge terms License, publicly available network server readily accessible means, must either (1) cause Corresponding Source available, (2) arrange deprive benefit patent license particular work, (3) arrange, manner consistent requirements License, extend patent license downstream recipients. “Knowingly relying” means actual knowledge , patent license, conveying covered work country, recipient’s use covered work country, infringe one identifiable patents country reason believe valid. , pursuant connection single transaction arrangement, convey, propagate procuring conveyance , covered work, grant patent license parties receiving covered work authorizing use, propagate, modify convey specific copy covered work, patent license grant automatically extended recipients covered work works based . patent license “discriminatory” include within scope coverage, prohibits exercise , conditioned non-exercise one rights specifically granted License. may convey covered work party arrangement third party business distributing software, make payment third party based extent activity conveying work, third party grants, parties receive covered work , discriminatory patent license () connection copies covered work conveyed (copies made copies), (b) primarily connection specific products compilations contain covered work, unless entered arrangement, patent license granted, prior 28 March 2007. 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Use with the GNU Affero General Public License","title":"GNU General Public License","text":"Notwithstanding provision License, permission link combine covered work work licensed version 3 GNU Affero General Public License single combined work, convey resulting work. terms License continue apply part covered work, special requirements GNU Affero General Public License, section 13, concerning interaction network apply combination .","code":""},{"path":"https://darrennorris.github.io/testmap/LICENSE.html","id":"id_14-revised-versions-of-this-license","dir":"","previous_headings":"TERMS AND CONDITIONS","what":"14. Revised Versions of this License","title":"GNU General Public License","text":"Free Software Foundation may publish revised /new versions GNU General Public License time time. new versions similar spirit present version, may differ detail address new problems concerns. version given distinguishing version number. Program specifies certain numbered version GNU General Public License “later version” applies , option following terms conditions either numbered version later version published Free Software Foundation. Program specify version number GNU General Public License, may choose version ever published Free Software Foundation. Program specifies proxy can decide future versions GNU General Public License can used, proxy’s public statement acceptance version permanently authorizes choose version Program. Later license versions may give additional different permissions. However, additional obligations imposed author copyright holder result choosing follow later version.","code":""},{"path":"https://darrennorris.github.io/testmap/LICENSE.html","id":"id_15-disclaimer-of-warranty","dir":"","previous_headings":"TERMS AND CONDITIONS","what":"15. Disclaimer of Warranty","title":"GNU General Public License","text":"WARRANTY PROGRAM, EXTENT PERMITTED APPLICABLE LAW. EXCEPT OTHERWISE STATED WRITING COPYRIGHT HOLDERS /PARTIES PROVIDE PROGRAM “” WITHOUT WARRANTY KIND, EITHER EXPRESSED IMPLIED, INCLUDING, LIMITED , IMPLIED WARRANTIES MERCHANTABILITY FITNESS PARTICULAR PURPOSE. ENTIRE RISK QUALITY PERFORMANCE PROGRAM . PROGRAM PROVE DEFECTIVE, ASSUME COST NECESSARY SERVICING, REPAIR CORRECTION.","code":""},{"path":"https://darrennorris.github.io/testmap/LICENSE.html","id":"id_16-limitation-of-liability","dir":"","previous_headings":"TERMS AND CONDITIONS","what":"16. 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Interpretation of Sections 15 and 16","title":"GNU General Public License","text":"disclaimer warranty limitation liability provided given local legal effect according terms, reviewing courts shall apply local law closely approximates absolute waiver civil liability connection Program, unless warranty assumption liability accompanies copy Program return fee. END TERMS CONDITIONS","code":""},{"path":"https://darrennorris.github.io/testmap/LICENSE.html","id":"how-to-apply-these-terms-to-your-new-programs","dir":"","previous_headings":"","what":"How to Apply These Terms to Your New Programs","title":"GNU General Public License","text":"develop new program, want greatest possible use public, best way achieve make free software everyone can redistribute change terms. , attach following notices program. safest attach start source file effectively state exclusion warranty; file least “copyright” line pointer full notice found. Also add information contact electronic paper mail. program terminal interaction, make output short notice like starts interactive mode: hypothetical commands show w show c show appropriate parts General Public License. course, program’s commands might different; GUI interface, use “box”. also get employer (work programmer) school, , sign “copyright disclaimer” program, necessary. information , apply follow GNU GPL, see . GNU General Public License permit incorporating program proprietary programs. program subroutine library, may consider useful permit linking proprietary applications library. want , use GNU Lesser General Public License instead License. first, please read .","code":" Copyright (C) This program is free software: you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version. This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details. You should have received a copy of the GNU General Public License along with this program. If not, see . Copyright (C) This program comes with ABSOLUTELY NO WARRANTY; for details type 'show w'. This is free software, and you are welcome to redistribute it under certain conditions; type 'show c' for details."},{"path":"https://darrennorris.github.io/testmap/articles/Interactive-map.html","id":"map","dir":"Articles","previous_headings":"","what":"Map","title":"Population change map","text":"Due number points, map can become slow respond zoom . Zoom level showing fewer points can pan around map find area interest. zoom check coloured points. find errors (e.g. points Podocnemis unifilis occur, points species “Endangered” populations increasing etc) please raise issue : https://github.com/darrennorris/testmap/issues . zoom see shaded points. points follow rivers produced remote sensing (Free-flowing Rivers, 2019: https://doi.org/10.1038/s41586-019-1111-9). facilitate online viewing mapped points subset intervals approximately 10 kilometers. points brown populations predicted decline 50% within 3 generations (35 years). Brown points therefore represent rivers species Endangered (“Em perigo” / “En peligro”), following IUCN Red List population size reduction criteria - A3bd (https://www.iucnredlist.org//faqs). points locations along rivers Podocnemis unifilis females likely nest likely accessible people boat.","code":""},{"path":"https://darrennorris.github.io/testmap/articles/Interactive-map.html","id":"methods","dir":"Articles","previous_headings":"","what":"Methods","title":"Population change map","text":"analysis developed : https://github.com/darrennorris/TACAR, methods used extension Norris et. al. 2019 includes: Stochastic population projections. Future impacts populations caused human acessibility (hunting) actions reduce river connectivity.","code":""},{"path":"https://darrennorris.github.io/testmap/articles/Interactive-map.html","id":"summaries","dir":"Articles","previous_headings":"","what":"Summaries","title":"Population change map","text":"summary map results presented . include summaries country major basin using full set points 1 kilometer intervals. date subpopulations identified due lack comprehensive genetic analysis. Summaries basin provided expected represent important management units predominantly aquatic species. implementation conservation actions regulated national levels summaries also provided country. Results include size extent future population changes. column “population change” difference number adult females 3 generations (35 years). consistent population size reduction criteria used IUCN Red List. column “River length Endangered”, proportion river length populations declined 50% , represents spatial extent future changes.","code":""},{"path":"https://darrennorris.github.io/testmap/articles/Interactive-map.html","id":"summary-by-country-","dir":"Articles","previous_headings":"Summaries","what":"Summary by country.","title":"Population change map","text":"Table 1. Population changes country.","code":""},{"path":"https://darrennorris.github.io/testmap/articles/Interactive-map.html","id":"summary-by-basin-","dir":"Articles","previous_headings":"Summaries","what":"Summary by basin.","title":"Population change map","text":"table “Amazon” includes Amazon Basin together Araguaia-Tocantins Basin Brazil. “Coastal North” covers Guianas includes Essequibo Basin. “Coastal South” includes part Maranhão State Brazil. Table 2. Population changes basin.","code":""},{"path":"https://darrennorris.github.io/testmap/articles/Interactive-map.html","id":"summary-by-major-basins-and-countries-","dir":"Articles","previous_headings":"Summaries","what":"Summary by major basins and countries.","title":"Population change map","text":"Table 3. Population changes country basin. table values can also presented graphically. enables clearer understanding patterns. Figure 1. Population changes across basins contries. grey bars figure show predicted population changes basin country combination. width bars proportional river length log scale. labels bar show river lengths thousands kilometers (e.g. “22.2” 22,200 kilometers). background shading follows gradient Near Threatened (“-0.2” 20% loss) Critically Endangered (“-0.8” 80% loss). Amazon Basin Brazil represents largest proportion rivers (51.1%). Considering spatial variation threats genetics, probably useful include Amazon Basin seperated major basins (Madeira, Negro, etc). summaries presented provide general overview enable assessment results, overall patterns change Amazon basin seperated .","code":""},{"path":"https://darrennorris.github.io/testmap/articles/Interactive-map.html","id":"next-steps","dir":"Articles","previous_headings":"","what":"Next steps","title":"Population change map","text":"Consult researchers check validate mapped results. Evaluate future impact conservation actions. Apply species.","code":""},{"path":"https://darrennorris.github.io/testmap/articles/testmap.html","id":"load-packages","dir":"Articles","previous_headings":"","what":"Load packages","title":"Getting started: make a map","text":"","code":"library(testmap) library(dplyr) library(sf) library(leaflet) library(leafem)"},{"path":"https://darrennorris.github.io/testmap/articles/testmap.html","id":"make-map","dir":"Articles","previous_headings":"","what":"Make map","title":"Getting started: make a map","text":"example shows map Podocnemis unifilis Endangered French Guiana. country chosen illustrative purposes relatively river points.","code":"## River points for specific country. points_bau4326 <- points_bau_ffr_map |> dplyr::filter(COUNTRY == \"French Guiana\") |> # country sf::st_as_sf(crs = 3395) |> sf::st_transform(4326) levels(points_bau4326$flag_50_35y) <- c(\"No\", \"Yes\") # colour palette leaf_pal <- colorFactor( palette = c(\"#7274C1\", \"#A3720E\"), domain = points_bau4326$flag_50_35y ) # interactive map. Options added to make panning smoother.... leaflet::leaflet(points_bau4326, options = leafletOptions(preferCanvas = TRUE)) |> # Basemap addTiles(options = tileOptions( updateWhenZooming = FALSE, # map won't update tiles until zoom is done updateWhenIdle = TRUE)) |> # Circles when zoom in. addCircles(color = ~leaf_pal(flag_50_35y), group = \"points_bau4326_low\" ) |> # Markers with cluster options for smoother panning. addCircleMarkers(color = ~leaf_pal(flag_50_35y), stroke = FALSE, fillOpacity = 0.4, clusterOptions = markerClusterOptions(), group = \"points_bau4326\" ) |> addLegend(\"bottomright\", pal = leaf_pal, title=\"Endangered\", values = ~flag_50_35y, group = \"en_legend\") |> groupOptions(\"points_bau4326\", zoomLevels = 1:6) |> groupOptions(\"points_bau4326_low\", zoomLevels = 7:15) |> addScaleBar() |> leafem::addMouseCoordinates()"},{"path":"https://darrennorris.github.io/testmap/authors.html","id":null,"dir":"","previous_headings":"","what":"Authors","title":"Authors and Citation","text":"Darren Norris. Author, maintainer.","code":""},{"path":"https://darrennorris.github.io/testmap/authors.html","id":"citation","dir":"","previous_headings":"","what":"Citation","title":"Authors and Citation","text":"Norris D (2024). testmap: Population projection maps Yellow-spotted River Turtle. R package version 0.0.0.9000, https://darrennorris.github.io/testmap/, https://github.com/darrennorris/testmap.","code":"@Manual{, title = {testmap: Population projection maps for the Yellow-spotted River Turtle}, author = {Darren Norris}, year = {2024}, note = {R package version 0.0.0.9000, https://darrennorris.github.io/testmap/}, url = {https://github.com/darrennorris/testmap}, }"},{"path":"https://darrennorris.github.io/testmap/index.html","id":"testmap","dir":"","previous_headings":"","what":"Population projection maps for the Yellow-spotted River Turtle","title":"Population projection maps for the Yellow-spotted River Turtle","text":"goal testmap map future population changes Yellow-spotted river turtle (Podocnemis unifilis). predicted future changes female-, stochastic stage-based matrix population projection models, developed : https://github.com/darrennorris/TACAR","code":""},{"path":"https://darrennorris.github.io/testmap/index.html","id":"objectives","dir":"","previous_headings":"","what":"Objectives","title":"Population projection maps for the Yellow-spotted River Turtle","text":"maps used Provide updated assesment threatened species . Inform development implement improvements modelling process.","code":""},{"path":"https://darrennorris.github.io/testmap/index.html","id":"results","dir":"","previous_headings":"","what":"Results","title":"Population projection maps for the Yellow-spotted River Turtle","text":"Summaries results including maps projected future changes can found online. 3 generation. Predicted changes 35 years: https://darrennorris.github.io/testmap/articles/Interactive-map.html","code":""},{"path":"https://darrennorris.github.io/testmap/index.html","id":"installation","dir":"","previous_headings":"","what":"Installation","title":"Population projection maps for the Yellow-spotted River Turtle","text":"can download data check visualise using R. testmap submitted CRAN data files large package therefore pass “cran” checks. need install testmap like :","code":"install.packages(\"remotes\") remotes::install_github(\"darrennorris/testmap\")"},{"path":"https://darrennorris.github.io/testmap/index.html","id":"example","dir":"","previous_headings":"","what":"Example","title":"Population projection maps for the Yellow-spotted River Turtle","text":"example shows summary future changes Podocnemis unifilis populations different countries. Another example showing Podocnemis unifilis Endangered : https://darrennorris.github.io/testmap/articles/testmap.html Package developed built using following guides: Fan Wang: https://fanwangecon.github.io/PkgTestR/articles/ffv_pkgdown_github.html Emil Hvitfeldt: https://emilhvitfeldt.com/post/2018-09-02-usethis-workflow--package-development/ Saskia O: https://www.marinedatascience.co/blog/2020/01/09/checklist--r-package-re-submissions--cran/","code":"library(testmap) library(dplyr) ## Summary by country. points_bau_ffr |> dplyr::mutate(flag_EN = if_else(fem_diff_t35 <= -0.5, 1, 0)) |> dplyr::group_by(COUNTRY) |> dplyr::summarise(pop_start = sum(fem_t0), pop_end = sum(fem_t35), pop_change = round(((sum(fem_t35) - sum(fem_t0)) / sum(fem_t0)), 3), length_river = n(), length_endangered = sum((flag_EN))) |> dplyr::ungroup() |> dplyr::mutate(proportion_endangered = round((length_endangered / length_river), 2)) |> dplyr::mutate(threat_status = case_when(pop_change <= -0.8 ~ \"Critically Endangered\", pop_change <= -0.5 ~ \"Endangered\", pop_change <= -0.3 ~ \"Vulnerable\", pop_change <= -0.2 ~ \"Near Threatened\")) #> # A tibble: 9 × 8 #> COUNTRY pop_start pop_end pop_change length_river length_endangered #> #> 1 Bolivia 222170 103830. -0.533 22217 15505 #> 2 Brazil 1905550 934926. -0.509 190555 115489 #> 3 Colombia 385520 204235. -0.47 38552 23628 #> 4 Ecuador 83020 25106. -0.698 8302 7066 #> 5 French Guiana 32980 18580. -0.437 3298 2048 #> 6 Guyana 73720 52144. -0.293 7372 3263 #> 7 Peru 473630 173911. -0.633 47363 36693 #> 8 Suriname 57560 40255. -0.301 5756 2643 #> 9 Venezuela 300220 188560. -0.372 30022 16714 #> # ℹ 2 more variables: proportion_endangered , threat_status "},{"path":"https://darrennorris.github.io/testmap/reference/points_bau.html","id":null,"dir":"Reference","previous_headings":"","what":"Points along rivers. — points_bau","title":"Points along rivers. — points_bau","text":"points show projected population changes along rivers. Projections generated TACAR (https://github.com/darrennorris/TACAR). population projections updated extended version published Norris et. al. 2019 (https://doi.org/10.1016/j.biocon.2019.02.022). location South America. coord. ref WGS 84 (EPSG:3395).","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Points along rivers. — points_bau","text":"","code":"points_bau"},{"path":"https://darrennorris.github.io/testmap/reference/points_bau.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Points along rivers. — points_bau","text":"points_bau dataframe 215849 points 13 fields, including: BASIN_N Name major basin. subbasn Name subbasn. geometry sf geometry.","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Points along rivers. — points_bau","text":"https://github.com/darrennorris/TACAR","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Points along rivers. — points_bau","text":"lot points along rivers.","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Points along rivers. — points_bau","text":"Norris, D., et. al. (2019). Prospects freshwater turtle population recovery catalyzed pan-Amazonian community-based management. Biological Conservation, 233, https://doi.org/10.1016/j.biocon.2019.02.022.","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Points along rivers. — points_bau","text":"","code":"if (FALSE) { # \\dontrun{ # convert to sf object sf_points_bau <- sf::st_as_sf(points_bau, crs = 3395) } # }"},{"path":"https://darrennorris.github.io/testmap/reference/points_bau_ffr.html","id":null,"dir":"Reference","previous_headings":"","what":"Points along Free-flowing rivers. — points_bau_ffr","title":"Points along Free-flowing rivers. — points_bau_ffr","text":"points show projected population changes along rivers. Projections generated TACAR (https://github.com/darrennorris/TACAR). population projections updated extended version published Norris et. al. 2019 (https://doi.org/10.1016/j.biocon.2019.02.022). location South America. coord. ref WGS 84 (EPSG:3395).","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau_ffr.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Points along Free-flowing rivers. — points_bau_ffr","text":"","code":"points_bau_ffr"},{"path":"https://darrennorris.github.io/testmap/reference/points_bau_ffr.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Points along Free-flowing rivers. — points_bau_ffr","text":"points_bau_ffr dataframe 353437 points 15 fields, including: BASIN_NAME Name major basin. subbasn Name subbasn. geom sf geometry column.","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau_ffr.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Points along Free-flowing rivers. — points_bau_ffr","text":"https://github.com/darrennorris/TACAR","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau_ffr.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Points along Free-flowing rivers. — points_bau_ffr","text":"lot points along rivers.","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau_ffr.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Points along Free-flowing rivers. — points_bau_ffr","text":"Norris, D., et. al. (2019). Prospects freshwater turtle population recovery catalyzed pan-Amazonian community-based management. Biological Conservation, 233, https://doi.org/10.1016/j.biocon.2019.02.022. Grill, G., Lehner, B., Thieme, M. et al. (2019) Mapping world’s free-flowing rivers. Nature 569, 215–221, https://doi.org/10.1038/s41586-019-1111-9.","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau_ffr.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Points along Free-flowing rivers. — points_bau_ffr","text":"","code":"if (FALSE) { # \\dontrun{ # convert to sf object sf_points_bau_ffr <- sf::st_as_sf(points_bau_ffr, crs = 3395) } # }"},{"path":"https://darrennorris.github.io/testmap/reference/points_bau_ffr_map.html","id":null,"dir":"Reference","previous_headings":"","what":"Subset of points along Free-flowing rivers. — points_bau_ffr_map","title":"Subset of points along Free-flowing rivers. — points_bau_ffr_map","text":"points show projected population changes along rivers. Projections generated TACAR (https://github.com/darrennorris/TACAR). population projections updated extended version published Norris et. al. 2019 (https://doi.org/10.1016/j.biocon.2019.02.022). location South America. coord. ref WGS 84 (EPSG:3395).","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau_ffr_map.html","id":"ref-usage","dir":"Reference","previous_headings":"","what":"Usage","title":"Subset of points along Free-flowing rivers. — points_bau_ffr_map","text":"","code":"points_bau_ffr_map"},{"path":"https://darrennorris.github.io/testmap/reference/points_bau_ffr_map.html","id":"format","dir":"Reference","previous_headings":"","what":"Format","title":"Subset of points along Free-flowing rivers. — points_bau_ffr_map","text":"points_bau_ffr_map dataframe 35344 points 15 fields, including: BASIN_NAME Name major basin. subbasn Name subbasn. geom sf geometry column.","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau_ffr_map.html","id":"source","dir":"Reference","previous_headings":"","what":"Source","title":"Subset of points along Free-flowing rivers. — points_bau_ffr_map","text":"https://github.com/darrennorris/TACAR","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau_ffr_map.html","id":"details","dir":"Reference","previous_headings":"","what":"Details","title":"Subset of points along Free-flowing rivers. — points_bau_ffr_map","text":"10% subset, includes one ten rows points_bau_ffr.","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau_ffr_map.html","id":"references","dir":"Reference","previous_headings":"","what":"References","title":"Subset of points along Free-flowing rivers. — points_bau_ffr_map","text":"Norris, D., et. al. (2019). Prospects freshwater turtle population recovery catalyzed pan-Amazonian community-based management. Biological Conservation, 233, https://doi.org/10.1016/j.biocon.2019.02.022. Grill, G., Lehner, B., Thieme, M. et al. (2019) Mapping world’s free-flowing rivers. Nature 569, 215–221, https://doi.org/10.1038/s41586-019-1111-9.","code":""},{"path":"https://darrennorris.github.io/testmap/reference/points_bau_ffr_map.html","id":"ref-examples","dir":"Reference","previous_headings":"","what":"Examples","title":"Subset of points along Free-flowing rivers. — points_bau_ffr_map","text":"","code":"if (FALSE) { # \\dontrun{ # convert to sf object sf_points_bau_ffr_map <- sf::st_as_sf(points_bau_ffr_map, crs = 3395) } # }"}]