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

]

raw (file)

raw files with mass spectra

*.{raw,RAW,Raw}

fasta (file)

fasta file with protein sequences

*.{fasta}

parfile (file)

MaxQuant parameter file (XML)

*.{xml}

Output

Name (Type)
Description
Pattern

meta (map)

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

]

versions (file)

File containing software version

versions.yml

maxquant_txt (file)

tables with peptides and protein information

*.{txt}
maintainer
Github user veitveit
get in touch
Ask a question on Slack Open an issue on GitHub

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