Mercurial > repos > galaxyp > maxquant

diff test-data/07/config.yml @ 11:d72c96ad9a16 draft

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"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 726423148e26cfb71958171851ec5ed4c307616e"
author galaxyp
date Tue, 15 Jun 2021 07:55:59 +0000
parents
children 0839f84def5e
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/07/config.yml	Tue Jun 15 07:55:59 2021 +0000
@@ -0,0 +1,52 @@
+
+            fastaFiles: [/tmp/tmpaa0pqa83/files/b/b/8/dataset_bb8c7384-70b6-410c-8efd-e0cfdf7cb971.dat]
+            parseRules:
+              identifierParseRule: '>([^\s]*)'
+              descriptionParseRule: '>(.*)'
+            minUniquePeptides: 0
+            minPepLen: 7
+            maxPeptideMass: 4600
+            calcPeakProperties: False
+            writeMzTab: False
+            separateLfq: False
+            lfqStabilizeLargeRatios: True
+            lfqRequireMsms: True
+            advancedSiteIntensities: True
+            matchBetweenRuns: False
+            includeContaminants: True
+            minPeptideLengthForUnspecificSearch: 8
+            maxPeptideLengthForUnspecificSearch: 25
+            decoyMode: revert
+            peptideFdr: 0.01
+            proteinFdr: 0.01
+            quantMode: 1
+            restrictProteinQuantification: True
+            restrictMods: [Oxidation (M),Acetyl (Protein N-term)]
+            useCounterparts: True
+            paramGroups:
+              - files: ['ptxqc.mzXML']
+                maxMissedCleavages: 2
+                fixedModifications: []
+                variableModifications: [Oxidation (M)]
+                enzymes: [Trypsin/P]
+                enzymeMode: 0
+                lcmsRunType: 'Reporter ion MS2'
+                reporterMassTolerance: 0.003
+                reporterPif: 0
+                reporterFraction: 0
+                reporterBasePeakRatio: 0
+                filterPif: False
+                isobaricLabels:
+                    
+                    - [TMT10plex-Lys126C,TMT10plex-Nter126C,0,0,0,0,True]
+                    - [TMT10plex-Lys127N,TMT10plex-Nter127N,0,0,0,0,True]
+                    - [TMT10plex-Lys127C,TMT10plex-Nter127C,0,0,0,0,True]
+                    - [TMT10plex-Lys128N,TMT10plex-Nter128N,0,0,0,0,True]
+                    - [TMT10plex-Lys128C,TMT10plex-Nter128C,0,0,0,0,True]
+                    - [TMT10plex-Lys129N,TMT10plex-Nter129N,0,0,0,0,True]
+                    - [TMT10plex-Lys129C,TMT10plex-Nter129C,0,0,0,0,True]
+                    - [TMT10plex-Lys130N,TMT10plex-Nter130N,0,0,0,0,True]
+                    - [TMT10plex-Lys130C,TMT10plex-Nter130C,0,0,0,0,True]
+                    - [TMT10plex-Lys131N,TMT10plex-Nter131N,0,0,0,0,True]
+    
+        
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