Add CITATION file and link to the Zenodo deposit.

NEWS.md

@@ -1,62 +1,69 @@
-# Version 1.0
+# SpectraTutorials 1.0
 
+## Changes in 1.0.1
+
+- Add Zenodo doi to citation file and README.
+
+## Changes in 1.0.0
+
+- Version published on https://doi.org/10.5281/zenodo.11210190
 - Use R 4.4 and Bioconductor 3.19.
 
-# Version 0.9
+# SpectraTutorials 0.9
 
-## Version 0.9.0
+## Changes in 0.9.0
 
 - Use R 4.3 and Bioconductor 3.18.
 
-# Version 0.8
+# SpectraTutorials 0.8
 
-## Version 0.8.2
+## Changes in 0.8.2
 
 - Add second example why caching changes is better than saving to database.
 
-## Version 0.8.1
+## Changes in 0.8.1
 
 - Include feedback and suggestions from Philippine Louail.
 
-## Version 0.8.0
+## Changes in 0.8.0
 
 - Add new tutorial *`Spectra`: an expandable infrastructure to handle mass
   spectrometry data*.
 - Download MassBank data as an alternative from *AnnotationHub*.
 
-# Version 0.7
+# SpectraTutorials 0.7
 
-## Version 0.7.3
+## Changes in 0.7.3
 
 - Fix mislabeling columns as experimental spectra and rows as MassBank spectra
   in the spectra similarity matrix (thanks to CSAMA2023 attendee for pointing
   this out!).
 
-## Version 0.7.2
+## Changes in 0.7.2
 
 - Use `MsBackendSql` instead of `MsqlBackend`.
 
-## Version 0.7.1
+## Changes in 0.7.1
 
 - Simplify/clarify description of spectra data processing.
 
-## Version 0.7.0
+## Changes in 0.7.0
 
 - Add section on the use of the `MsqlBackend` and compare performance to
   `MsBackendMzR` and `MsBackendDataFrame`.
 
-# Version 0.6
+# SpectraTutorials 0.6
 
-## Version 0.6.3
+## Changes in 0.6.3
 
 - Better describe usage of the alternative SQLite MassBank database file in the
   two workshops.
 
-## Version 0.6.2
+## Changes in 0.6.2
 
 - Add citation.
 
-## Version 0.6.1
+## Changes in 0.6.1
 
 - Adapt to changes in `Spectra` >= 1.5.8: export `spectraVariableMapping`
   method.
@@ -65,29 +72,29 @@
 - Adapt to changes in `MetaboAnnotation` >= 0.99.4: also the ppm error is
   reported by `matchMz`.
 
-## Version 0.6.0
+## Changes in 0.6.0
 
 - Remove the `Spectra` object with data from HMDB.
 - Use a `CompDb` database for HMDB annotations.
 
-# Version 0.5
+# SpectraTutorials 0.5
 
-## Version 0.5.0
+## Changes in 0.5.0
 
 - Add additional vignette describing spectra matching with the
   `MetaboAnnotation` package and integration into an `xcms` analysis workflow.
 
-# Version 0.4
+# SpectraTutorials 0.4
 
-## Version 0.4.0
+## Changes in 0.4.0
 
 - Version used at the BioC2021 conference.
 - Use MassBank release 2021.03.
 - Restructure the document and simplify the analysis (reduce to mzML files with
   20eV collision energy).
 
-# Version 0.3
+# SpectraTutorials 0.3
 
-## Version 0.3.2
+## Changes in 0.3.2
 
 - Use MassBank release 2021.02 and add expand descriptive text.

README.md

@@ -24,6 +24,16 @@ respective workshop section.
 See [NEWS.md](NEWS.md) for information on the current version and a change log.
 
 
+## Citation
+
+This tutorials (and future versions) are deposited at
+[Zenodo](https://zenodo.org). To cite this version of the tutorial:
+
+Johannes Rainer and Philippine Louail. SpectraTutorials version 1.0.0: Mass
+Spectrometry Data Analysis with Spectra. Zenodo, May
+17, 2024. https://doi.org/10.5281/zenodo.11210190
+
+
 ## Installation
 
 For on-line code evaluation the workshops can also be run using a self-contained

inst/CITATION

@@ -0,0 +1,19 @@
+citHeader("To cite this workflow:")
+
+citEntry(entry = "Manual",
+         title  = "SpectraTutorials: Mass Spectrometry Data Analysis with Spectra",
+         author = personList(
+           person(given = "Johannes", family = "Rainer"),
+           person(given = "Philippine", family = "Louail")
+         ),
+         publisher = "Zenodo",
+         year = "2024",
+         month = "may",
+         version = "v1.0.0",
+         doi = "10.5281/zenodo.11210190",
+         url = "https://doi.org/10.5281/zenodo.11210190",
+         textVersion = paste0("Johannes Rainer, & Philippine Louail. (2024). ",
+                              "SpectraTutorials version 1.0.0: Mass ",
+                              "Spectrometry Data Analysis with Spectra. ",
+                              "Zenodo. https://doi.org/10.5281/zenodo.11210190")
+         )