ReFraction-package: Re-Fraction

In PengyiYang/ReFraction: A machine learning approach for deterministic identification of protein homologues and splice variants in large-scale MS-based proteomics

Description

A machine learning approach for deterministic identification of protein homologs and splice variants in large-scale MS-based proteomics. This algorithm relies on the fractionation performed on protein level by SDS-PAGE for example and use such information to reassign peptides that were assigned non-uniquely to multiple proteins. Please refer to reference [1] for details.

Details

Package:	ReFraction
Type:	Package
Version:	0.2
Date:	2012-04-04
License:	GPL-2

Author(s)

Pengyi Yang

Maintainer: Pengyi Yang <[e-mail]>

References

[1] Pengyi Yang, Sean J. Humphrey, Daniel J. Fazakerley, Matthew J. Prior, Guang Yang, David E. James, and Jean Yee-Hwa Yang, Re-Fraction: a machine learning approach for deterministic identification of protein homologs and splice variants in large-scale MS-based proteomics, Journal of Proteome Research, http://dx.doi.org/10.1021/pr300072j

Examples

# Use following for details on how to apply ReFraction with example data.
?applyReFraction 

# You need to provide protein database and peptide table. You can prepare your data according to the example data. 
# There is also a function for extracting protein properties from a fasta database file.
?extractDatabase

PengyiYang/ReFraction documentation built on May 14, 2019, 11:01 p.m.