Mercurial > repos > galaxyp > maxquant

comparison test-data/01/combined/txt/parameters.txt @ 12:0839f84def5e draft

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"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/maxquant commit d0dc9303d449c63a6ffe8fbfe195951d5db9cb89"
author galaxyp
date Sun, 20 Jun 2021 16:37:41 +0000
parents 2133b0be850a
children 8934bc76bb52
comparison
equal deleted inserted replaced
11:d72c96ad9a16 12:0839f84def5e
1 Parameter Value 1 Parameter Value
2 Version 1.6.10.43 2 Version 1.6.17.0
3 User name dglaetzer 3 User name niko
4 Machine name FPROT-BEAST 4 Machine name DESKTOP-I3UDKML
5 Date of writing 02/25/2020 15:36:33 5 Date of writing 06/16/2021 16:28:26
6 Include contaminants True 6 Include contaminants True
7 PSM FDR 0.01 7 PSM FDR 0.01
8 PSM FDR Crosslink 0.01 8 PSM FDR Crosslink 0.01
9 Protein FDR 0.01 9 Protein FDR 0.01
10 Site FDR 0.01 10 Site FDR 0.01
16 Min. delta score for modified peptides 6 16 Min. delta score for modified peptides 6
17 Min. unique peptides 0 17 Min. unique peptides 0
18 Min. razor peptides 1 18 Min. razor peptides 1
19 Min. peptides 1 19 Min. peptides 1
20 Use only unmodified peptides and True 20 Use only unmodified peptides and True
21 Modifications included in protein quantification 21 Modifications included in protein quantification Oxidation (M);Acetyl (Protein N-term)
22 Peptides used for protein quantification Razor 22 Peptides used for protein quantification Razor
23 Discard unmodified counterpart peptides False 23 Discard unmodified counterpart peptides False
24 Label min. ratio count 2 24 Label min. ratio count 2
25 Use delta score False 25 Use delta score False
26 iBAQ False 26 iBAQ False
27 iBAQ log fit False 27 iBAQ log fit False
28 Match between runs False 28 Match between runs False
29 Find dependent peptides False 29 Find dependent peptides False
30 Fasta file D:\shared\dglaetzer\maxquant_tool\test1\bsa.fasta 30 Fasta file /tmp/tmpyzym30dx/files/3/c/e/dataset_3cea3228-eaab-4e71-aba7-9ffa9900b54a.dat
31 Decoy mode revert 31 Decoy mode revert
32 Include contaminants True 32 Include contaminants True
33 Advanced ratios True 33 Advanced ratios True
34 Fixed andromeda index folder 34 Fixed andromeda index folder
35 Temporary folder
36 Combined folder location 35 Combined folder location
37 Second peptides True 36 Second peptides True
38 Stabilize large LFQ ratios True 37 Stabilize large LFQ ratios True
39 Separate LFQ in parameter groups False 38 Separate LFQ in parameter groups False
40 Require MS/MS for LFQ comparisons True 39 Require MS/MS for LFQ comparisons True
44 Write msScans table False 43 Write msScans table False
45 Write msmsScans table True 44 Write msmsScans table True
46 Write ms3Scans table True 45 Write ms3Scans table True
47 Write allPeptides table True 46 Write allPeptides table True
48 Write mzRange table True 47 Write mzRange table True
48 Write DIA fragments table False
49 Write pasefMsmsScans table True 49 Write pasefMsmsScans table True
50 Write accumulatedPasefMsmsScans table True 50 Write accumulatedPasefMsmsScans table False
51 Max. peptide mass [Da] 4600 51 Max. peptide mass [Da] 4600
52 Min. peptide length for unspecific search 8 52 Min. peptide length for unspecific search 8
53 Max. peptide length for unspecific search 25 53 Max. peptide length for unspecific search 25
54 Razor protein FDR True 54 Razor protein FDR True
55 Disable MD5 False 55 Disable MD5 False