From e5e861c1ccd1c1162664162242d51a4738d0df29 Mon Sep 17 00:00:00 2001 From: colin-combe Date: Wed, 15 Nov 2017 11:07:47 +0000 Subject: [PATCH 1/4] added citation --- README.md | 12 +++++++++--- demo/css/demo.css | 5 +++++ index.html | 3 +-- 3 files changed, 15 insertions(+), 5 deletions(-) diff --git a/README.md b/README.md index 68d2331..b2013db 100644 --- a/README.md +++ b/README.md @@ -1,7 +1,12 @@ -xiNET interaction viewer -======================== +Complex Viewer +============== -v1.0 of the interaction viewer is deployed in EBI's Complex Portal, e.g. http://www.ebi.ac.uk/intact/complex/details/EBI-706830 + +###Citation: + +[Colin W Combe, Marine (Dumousseau) Sivade, Henning Hermjakob, Joshua Heimbach, Birgit H M Meldal, Gos Micklem, Sandra Orchard, Juri Rappsilber; ComplexViewer: visualization of curated macromolecular complexes, _Bioinformatics_, Volume 33, Issue 22, 15 November 2017, Pages 3673–3675, https://doi.org/10.1093/bioinformatics/btx497](https://doi.org/10.1093/bioinformatics/btx497) + +v1 of the interaction viewer is deployed in EBI's Complex Portal, e.g. http://www.ebi.ac.uk/intact/complex/details/EBI-706830 We are working towards a general purpose web component for visualising interactions between biomolecules. The aim is to represent the data present in the PSI-MI standards. @@ -19,6 +24,7 @@ JAMI was originally developed by Marine Dumousseau, who also largely determined ##Build Process +(0. install nodejs, npm) 1. Clone the repository. 2. $ cd /interaction-viewer 3. $ npm install diff --git a/demo/css/demo.css b/demo/css/demo.css index affecba..7d4c283 100644 --- a/demo/css/demo.css +++ b/demo/css/demo.css @@ -15,6 +15,11 @@ width:100%; } +.page-header h1{ + color: white; + text-decoration: underline; +} + h1 { font-size:1.6em; display:inline; diff --git a/index.html b/index.html index df2e813..ef2599e 100644 --- a/index.html +++ b/index.html @@ -27,8 +27,7 @@
-

ComplexViewer

-

Colin Combe, Marine (Dumousseau) Sivade, Henning Hermjakob, Joshua Heimbach, Birgit Meldal, Gos Micklem, Sandra Orchard, Juri Rappsilber

+

ComplexViewer: visualization of curated macromolecular complexes
From fd53e99dc54d30d2113065c399c3c7aea348afb3 Mon Sep 17 00:00:00 2001 From: colin-combe Date: Wed, 15 Nov 2017 11:11:16 +0000 Subject: [PATCH 2/4] fix md --- README.md | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/README.md b/README.md index b2013db..6fe25e3 100644 --- a/README.md +++ b/README.md @@ -2,7 +2,7 @@ Complex Viewer ============== -###Citation: +### Citation: [Colin W Combe, Marine (Dumousseau) Sivade, Henning Hermjakob, Joshua Heimbach, Birgit H M Meldal, Gos Micklem, Sandra Orchard, Juri Rappsilber; ComplexViewer: visualization of curated macromolecular complexes, _Bioinformatics_, Volume 33, Issue 22, 15 November 2017, Pages 3673–3675, https://doi.org/10.1093/bioinformatics/btx497](https://doi.org/10.1093/bioinformatics/btx497) @@ -13,7 +13,7 @@ The aim is to represent the data present in the PSI-MI standards. Join us! -##Input data +## Input data The 'MI-JSON' data format consumed by the interaction-viewer is generated by the JAMI framework. See: https://github.com/MICommunity/psimi @@ -22,7 +22,7 @@ JAMI is capable of converting between various MI data formats, it can convert th JAMI was originally developed by Marine Dumousseau, who also largely determined the structure of the MI-JSON format the viewer reads. -##Build Process +## Build Process (0. install nodejs, npm) 1. Clone the repository. From 405174f8a7276f607b95779f344d27d089cd2f73 Mon Sep 17 00:00:00 2001 From: colin-combe Date: Wed, 15 Nov 2017 11:12:19 +0000 Subject: [PATCH 3/4] fix md --- README.md | 7 +------ 1 file changed, 1 insertion(+), 6 deletions(-) diff --git a/README.md b/README.md index 6fe25e3..51ec136 100644 --- a/README.md +++ b/README.md @@ -1,9 +1,6 @@ -Complex Viewer +ComplexViewer ============== - -### Citation: - [Colin W Combe, Marine (Dumousseau) Sivade, Henning Hermjakob, Joshua Heimbach, Birgit H M Meldal, Gos Micklem, Sandra Orchard, Juri Rappsilber; ComplexViewer: visualization of curated macromolecular complexes, _Bioinformatics_, Volume 33, Issue 22, 15 November 2017, Pages 3673–3675, https://doi.org/10.1093/bioinformatics/btx497](https://doi.org/10.1093/bioinformatics/btx497) v1 of the interaction viewer is deployed in EBI's Complex Portal, e.g. http://www.ebi.ac.uk/intact/complex/details/EBI-706830 @@ -11,8 +8,6 @@ v1 of the interaction viewer is deployed in EBI's Complex Portal, e.g. http://ww We are working towards a general purpose web component for visualising interactions between biomolecules. The aim is to represent the data present in the PSI-MI standards. -Join us! - ## Input data The 'MI-JSON' data format consumed by the interaction-viewer is generated by the JAMI framework. From c9b98c8e0f25276924c8c7513ed4fe1e2dfc2561 Mon Sep 17 00:00:00 2001 From: colin-combe Date: Wed, 15 Nov 2017 11:21:15 +0000 Subject: [PATCH 4/4] 1.0.9 --- package.json | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/package.json b/package.json index 6e29970..d0907fa 100644 --- a/package.json +++ b/package.json @@ -1,6 +1,6 @@ { "name": "complexviewer", - "version": "1.0.8", + "version": "1.0.9", "description": "A network visualisation that displays molecular interaction data, including detailed residue-level information such as binding sites. v1 is used in EBI's Complex Portal. The aim for v2 is a general purpose viewer for PSI-MI XML data", "author": { "name": "Colin Combe",