Mercurial > repos > galaxyp > maxquant

comparison test-data/06/config.yml @ 10:f522c08e900c draft

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"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit 63e45d43f403514ab0ceafaf441d761866f1eb7e"
author galaxyp
date Fri, 12 Mar 2021 08:41:06 +0000
parents
children 0839f84def5e
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9:37d669de2828 10:f522c08e900c
1
2 fastaFiles: [/tmp/tmp0wswhy4o/files/e/e/e/dataset_eee05aed-87d2-4635-87b0-dd7930cc43dc.dat]
3 parseRules:
4 identifierParseRule: '>([^\s]*)'
5 descriptionParseRule: '>(.*)'
6 minUniquePeptides: 0
7 minPepLen: 7
8 maxPeptideMass: 4600
9 calcPeakProperties: False
10 writeMzTab: True
11 separateLfq: False
12 lfqStabilizeLargeRatios: True
13 lfqRequireMsms: True
14 advancedSiteIntensities: True
15 matchBetweenRuns: False
16 includeContaminants: False
17 minPeptideLengthForUnspecificSearch: 7
18 maxPeptideLengthForUnspecificSearch: 24
19 decoyMode: randomize
20 peptideFdr: 0.5
21 proteinFdr: 0.4
22 quantMode: 0
23 restrictProteinQuantification: True
24 restrictMods: [Pro5,Pro6]
25 useCounterparts: True
26 paramGroups:
27 - files: ['BSA_min_23.mzXML']
28 maxMissedCleavages: 2
29 fixedModifications: []
30 variableModifications: [Oxidation (M)]
31 enzymes: [Trypsin/P]
32 enzymeMode: 0
33 lcmsRunType: 'Reporter ion MS3'
34 reporterMassTolerance: 0.003
35 reporterPif: 0
36 reporterFraction: 0
37 reporterBasePeakRatio: 0
38 filterPif: False
39 isobaricLabels:
40 - ['TMT2plex-Lys126','TMT2plex-Nter126',0.0,0.0,6.7,3.0,True]
41 - ['TMT2plex-Lys127','TMT2plex-Nter127',0.0,0.0,0.0,0.0,True]
42 - files: ['BSA_min_22.mzxml']
43 maxMissedCleavages: 2
44 fixedModifications: []
45 variableModifications: []
46 enzymes: []
47 enzymeMode: 0
48 lcmsRunType: 'Reporter ion MS3'
49 reporterMassTolerance: 0.003
50 reporterPif: 0.8
51 reporterFraction: 0
52 reporterBasePeakRatio: 0
53 filterPif: True
54 isobaricLabels:
55 - [iTRAQ4plex-Lys114,iTRAQ4plex-Nter114,0,0,0,0,False]
56 - [iTRAQ4plex-Lys115,iTRAQ4plex-Nter115,0,0,0,0,False]
57 - [iTRAQ4plex-Lys116,iTRAQ4plex-Nter116,0,0,0,0,False]
58 - [iTRAQ4plex-Lys117,iTRAQ4plex-Nter117,0,0,0,0,False]
59