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specL (version 1.6.2)

specL - Prepare Peptide Spectrum Matches for Use in Targeted Proteomics

Description

specL provides a function for generating spectra libraries which can be used for MRM SRM MS workflows in proteomics. The package provides a BiblioSpec reader, a function which can add the protein information using a FASTA formatted amino acid file, and an export method for using the created library in the Spectronaut software.

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Version

Version

1.6.2

License

GPL-3

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Maintainer

Christian Panse

Last Published

February 15th, 2017

Functions in specL (1.6.2)

peptideStd

Peptide standard
iRTpeptides

iRT peptides - independent retention time peptides
genSwathIonLib

Spectrum library generator for SWATH analysis
specLSet-class

Class "specLSet"
ms1.p2069

ms1 masses
write.spectronaut-methods

Methods for Function write.spectronaut in Package specL
show-methods

Methods for Function show in Package specL ~~
plot-methods

Method for Function plot in Package specL
specL-class

Class "specL"
cdsw

Generate Dynamic SWATH Window
annotate.protein_id

Annotate protein_id
read.bibliospec

BiblioSpec Reader
ssrc

Sequence Specific Retention Calculator