Mercurial > repos > proteore > proteore_get_unique_peptide_srm_method
diff README.rst @ 0:a61b50b16a16 draft
planemo upload commit ad9e95d0b6403f1c13388b7d85cc374ca5f99ac2-dirty
| author | proteore |
|---|---|
| date | Wed, 10 Jul 2019 10:19:48 -0400 |
| parents | |
| children | de6edb368dec |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/README.rst Wed Jul 10 10:19:48 2019 -0400 @@ -0,0 +1,55 @@ + **Description** + +This tool allows you to get SRM/MRM informations from Uniprot-AC IDs. + +----- + +**Input** + +A list of IDs (entered in a copy/paste mode) or a single-column file, the tool will then return a file containing the wanted protein features. +If your input is a multiple-column file, the mapped IDs column(s) will be added at the end of the input file. + +.. class:: warningmark + +Accession numbers with an hyphen ("-") that normally correspond to isoform are not considered as similar to its canonical form. + +.. class:: warningmark + +In copy/paste mode, the number of IDs considered in input is limited to 5000. + +----- + +**Parameters** + +- **Enter IDS:** enter your Uniprot-AC from a file or a copy paste +- **Release:** choose the release you want to use for retrieving protein sequences / features +- **Protein sequence/Features:** choose proteins features you want to retrieve + +----- + +**Output** + +A text file containing the selected protein features (in addition to the original column(s) provided). +Please, note that a "NA" is returned when there is no match between a source ID and SRM/MRM source file. + +----- + +**Data sources (release date)** + +This tool is using the following source file: + +- `HumanSRMAtlasPeptidesFinalAnnotated (2016-04) <http://www.srmatlas.org/downloads/HumanSRMAtlasPeptidesFinalAnnotated.xlsx>`_. + +----- + +.. class:: infomark + +**Authors** + +David Christiany, Florence Combes, Yves Vandenbrouck CEA, INSERM, CNRS, Grenoble-Alpes University, BIG Institute, FR + +Sandra Dérozier, Olivier Rué, Christophe Caron, 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. + +Help: contact@proteore.org for any questions or concerns about this tool. \ No newline at end of file
