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Requirements - JRE 1.6 or greater - Main memory 2GB or greater (recommended 4GB) Installation - Unzip MSGFPlus.zip - Place MSGFPlus.jar in any folder Usage Information - Type 'java -jar MSGFPlus.jar' for command line arguments - To convert an mzid output file into a tsv file, run 'java -cp MSGFPlus.jar edu.ucsd.msjava.ui.MzIDToTsv' - For detailed documentation, see the "doc" subfolder, or visit: - https://omics.pnl.gov/software/ms-gf - https://bix-lab.ucsd.edu/pages/viewpage.action?pageId=13533355 Contact Information - PNNL Proteomics [proteomics@pnnl.gov] - Sangtae Kim [sangtae.kim (at) gmail.com] Publications - MS-GF+: Universal Database Search Tool for Mass Spectrometry, Sangtae Kim, Pavel A. Pevzner, Nat Commun. 2014 Oct 31;5:5277. doi: 10.1038/ncomms6277. http://www.ncbi.nlm.nih.gov/pubmed/?term=25358478 - Spectral Probabilities and Generating Functions of Tandem Mass Spectra: A Strike against Decoy Databases, Sangtae Kim, Nitin Gupta and Pavel Pevzner, J Proteome Res. 2008 Aug;7(8):3354-63. doi: 10.1021/pr8001244. http://www.ncbi.nlm.nih.gov/pubmed/?term=18597511 Updates - http://omics.pnl.gov/software/ms-gf Source - https://github.com/sangtaekim/msgfplus
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