Mercurial > repos > proteore > proteore_kegg_pathways_coverage
changeset 3:0308c2d81607 draft
planemo upload commit 4ba1ebe7b3f5e3fabf78b5fed7ed0b92e2cbf9e5-dirty
| author | proteore |
|---|---|
| date | Fri, 28 Jun 2019 05:15:49 -0400 |
| parents | 60368fca9772 |
| children | 1fb202eb3609 |
| files | kegg_identification.xml |
| diffstat | 1 files changed, 9 insertions(+), 7 deletions(-) [+] |
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--- a/kegg_identification.xml Tue Mar 05 09:37:56 2019 -0500 +++ b/kegg_identification.xml Fri Jun 28 05:15:49 2019 -0400 @@ -1,4 +1,4 @@ -<tool id="kegg_identification" name="Pathways identification" version="2019.03.05"> +<tool id="kegg_identification" name="Pathways identification" version="2019.06.27"> <description>and coverage [KEGG]</description> <requirements> <requirement type="package" version="1.18.0">bioconductor-keggrest</requirement> @@ -22,7 +22,7 @@ ]]></command> <inputs> <conditional name="input" > - <param name="ids" type="select" label="Enter your IDs (Entrez gene IDs, KEGG gene IDs or UniProt Accession number)" help="Copy/paste or from a file (e.g. table)" > + <param name="ids" type="select" label="Enter your IDs (Entrez gene IDs, KEGG IDs, UniProt Accession number)" help="Copy/paste or from a file (e.g. table)" > <option value="text">Copy/paste your IDs</option> <option value="file" selected="true">Input file containing your IDs</option> </param> @@ -93,9 +93,11 @@ .. class:: warningmark -If you use Uniprot accession number, it will be converted to KEGG gene ID; this step can be time consuming. +If you use Uniprot accession number, it will be converted to KEGG gene ID; this step can be time consuming. KEGG database being "gene-centric" we recommend the use of Entrez gene IDs. -If your input file contains other type of ID, please use the ID_Converter tool. +If your input file contains other type of ID (than those allowed), please use the ID_Converter tool. + +In copy/paste mode, the number of IDs considered in input is limited to 5000. ----- @@ -133,13 +135,13 @@ **Galaxy integration** -David Christiany, Florence Combes, Yves Vandenbrouck CEA, INSERM, CNRS, Grenoble-Alpes University, BIG Institute, FR +David Christiany, Florence Combes, Yves Vandenbrouck - CEA, INSERM, CNRS, Grenoble-Alpes University, BIG Institute, FR -Sandra Dérozier, Olivier Rué, Valentin Loux INRA, Paris-Saclay University, MAIAGE Unit, Migale Bioinformatics platform, FR +Sandra Dérozier, Olivier Rué, Valentin Loux - INRA, Paris-Saclay University, MAIAGE Unit, Migale Bioinformatics platform, FR This work has been partially funded through the French National Agency for Research (ANR) IFB project. -Contact support@proteore.org for any questions or concerns about the Galaxy implementation of this tool. +Help: contact@proteore.org for any questions or concerns about this tool. ]]></help> <citations>