Description

Run standard proteomics data analysis with MaxQuant, mostly dedicated to label-free. Paths to fasta and raw files needs to be marked by “PLACEHOLDER”

Input

name:type
description
pattern

meta:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end

]

fasta:file

fasta file with protein sequences

*.{fasta}

paramfile:file

MaxQuant parameter file

raw:file

raw files with mass spectra

*.{raw,RAW,Raw}

Output

name:type
description
pattern

maxquant_txt

meta:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end

]

*.txt:file

tables with peptides and protein information

*.{txt}

versions

versions.yml:file

File containing software version

versions.yml

Tools

maxquant
http://www.coxdocs.org/lib/exe/fetch.php?media=license_agreement.pdf

MaxQuant is a quantitative proteomics software package designed for analyzing large mass-spectrometric data sets. License restricted.

maxquant.org http://coxdocs.org/doku.php?id=maxquant:start
maintainer
Github user veitveit
get in touch
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