This package aims to bridge R and the peptide database search tool MS-GF+. The
main class of the package is msgfPar which handles parsing of parameters to
MS-GF+. The msgfPar class has a runMSGF method that starts a peptide search
for a given set of MS data files and possibly reimports the results using mzID.
Besides this basic functionality it also supports reading in parameters from
mzIdentML files created by MS-GF+ in order to replicate a search setup as well
as a very simple gWidgets based GUI to fill out a msgfPar object.