diff test-data/05/config.yml @ 10:f522c08e900c draft

"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 63e45d43f403514ab0ceafaf441d761866f1eb7e"

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/05/config.yml	Fri Mar 12 08:41:06 2021 +0000
@@ -0,0 +1,45 @@
+
+            fastaFiles: [/tmp/tmp0wswhy4o/files/4/7/7/dataset_4770959a-66d4-405f-a5b5-48d25389063a.dat]
+            parseRules:
+              identifierParseRule: '^>.*\|(.*)\|.*$'
+              descriptionParseRule: '^>.*\|.*\|[^ ]+ (.*) OS.*$'
+            minUniquePeptides: 1
+            minPepLen: 7
+            maxPeptideMass: 4600
+            calcPeakProperties: False
+            writeMzTab: False
+            ibaq: True
+            ibaqLogFit: False
+            separateLfq: False
+            lfqStabilizeLargeRatios: True
+            lfqRequireMsms: True
+            advancedSiteIntensities: True
+            matchBetweenRuns: True
+            matchingTimeWindow: 0.7
+            matchingIonMobilityWindow: 0.05
+            alignmentTimeWindow: 20
+            alignmentIonMobilityWindow: 1
+            matchUnidentifiedFeatures: 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: ['BSA_min_22.mzxml']
+                maxMissedCleavages: 1
+                fixedModifications: [Carbamidomethyl (C)]
+                variableModifications: [Oxidation (M)]
+                enzymes: [Trypsin/P]
+                enzymeMode: 0
+                lfqMode: 1
+                lfqSkipNorm: True
+                lfqMinEdgesPerNode: 3
+                lfqAvEdgesPerNode: 6
+                lfqMinRatioCount: 2
+        
\ No newline at end of file