modules/proteus_readproteingroups
reads a maxQuant proteinGroups file with Proteus
Input
Groovy Map containing contrast information, e.g. [ variable:'treatment', reference:'treated', control:'saline', blocking:'' ]
CSV or TSV format sample sheet with sample metadata; check here for specifications: https://rdrr.io/github/bartongroup/Proteus/man/readProteinGroups.html
proteinGroups TXT file with protein intensities information from maxQuant; check here for specifications: https://rdrr.io/github/bartongroup/Proteus/man/readProteinGroups.html
Groovy Map containing contrast information, e.g. [ variable:'treatment', reference:'treated', control:'saline', blocking:'' ]
Output
PNG file; dendrogram of the normalized samples hierarchically clustered by their intensities
PNG file; plot of the log-intensity variance vs log-intensity mean of each condition in the normalized samples
RDS file of a proteinGroups object from Proteus, contains raw protein intensities and additional info
RDS file of a proteinGroups object from Proteus, contains normalized protein intensities and additional info