CRAN

apmsWAPP 1.0

Pre- and Postprocessing for AP-MS data analysis based on spectral counts

Released Apr 22, 2014 by Martina Fischer

This package cannot yet be used with Renjin it depends on other packages which are not available: genefilter 1.50.0, aroma.light 2.4.0, and DESeq 1.20.0

Dependencies

genefilter 1.50.0 aroma.light 2.4.0 DESeq 1.20.0 Biobase 2.28.0 edgeR 3.10.2 gtools 3.4.0 seqinr 3.0-7 multtest 2.24.0

apmsWAPP provides a complete workflow for the analysis of AP-MS data (replicate single-bait purifications including negative controls) based on spectral counts. It comprises pre-processing, scoring and postprocessing of protein interactions. A final list of interaction candidates is reported: it provides a ranking of the candidates according to their p-values which allow estimating the number of false-positive interactions.

Source

R

View GitHub Mirror

Release History