Man pages for kroganlab/artMS
Analytical R tools for Mass Spectrometry

avg_intensity_RTSummarize average intensity and retention time per protein
checkIfFileCheck if an input is a file or a data object
filterNumUniqPepFilter MaxQuant data based on Number of Unique Peptides
interaction_overlapLook for Overlap between Two Groups
MaxQToSaintConvert MaxQuant file into a format to work with SAINT
mergeMaxQDataWithKeysMerge MaxQuant Data with Keys
mq2mssConvert MaxQuant evidence file to MSStats compatible format
mq2mss_PTMMaxQuant PTM to MSStats.
MQ.msstatsRun MSStats pipeline designed for MaxQuant evidence files.
MQutil.annotateAnnotate MSStats results file.
MQutil.concatConcatenate MaxQuant search result files
MQutil.mapSitesBackMap the results back into sites format after MSStats PTM site...
MQutil.MaxQToSaintConvert MaxQuant file into a format to work with SAINT
MQutil.MISTformatConvert MaxQuant to MIST format
MQutil.ProteinToSiteConversionConvert Protein format to Site format
MQutil.sampleQuantAdd Abundancd data to Results.
MQutil.SILACToLongConvert Silac to Long Format
MQutil.spectralCountsGet Spectral Counts
msstats_summarySummarize the MSStats results and data quantification
read_evidence_fileRead in Evidence File
resultsHeatmapCreate Heatmap from MSStat Results
resultsWideConvert default MSStat results file to Wide format.
select_refSelect Reference protein(s) for normalization
volcanoPlotCreate Volcano Plots from MSstats results
kroganlab/artMS documentation built on April 3, 2018, 4:06 p.m.