peptideStd: Peptide standard

In specL: specL - Prepare Peptide Spectrum Matches for Use in Targeted Proteomics

Description

This dataset is a list of a peptide spectrum matches (protein identification result) from two standard runs.

Format

contains a list of peptide spectrum assignments.

Details

These standard runs (LCMS experiments) are routinely run on well maintained instruments. In this case a standard run consits of a digest of the FETUIN_BOVINE protein (400 amol) and iRT peptides.

Author(s)

Christian Panse, Christian Trachsel and Jonas Grossmann 2014

See Also

http://fgcz-data.uzh.ch/~cpanse/specL/data/

Examples

    peakplot(peptideStd[[40]]$peptideSequence, peptideStd[[40]])

    ## Not run: 

        download.file("http://fgcz-data.uzh.ch/~cpanse/specL/data/peptideStd.blib", 
            destfile="peptideStd.blib")

        download.file("http://fgcz-data.uzh.ch/~cpanse/specL/data/peptideStd.redundant.blib", 
            destfile="peptideStd.redundant.blib")

        # checksum

        if (require(tools)){
            md5sum(c("peptideStd.blib", "peptideStd.redundant.blib")) == 
                c("3f231931e54efd6516d7aa302073b17f", 
                    "8bab829d9e99344136613a17c0374b90")
        }

        peptideStd <- read.bibliospec("peptideStd.blib")
        peptideStd.redundant <- read.bibliospec("peptideStd.redundant.blib")

    
## End(Not run)

specL documentation built on Nov. 8, 2020, 7:55 p.m.