BioConductor

YAPSA 1.6.0

Yet Another Package for Signature Analysis

Released Aug 4, 2015 by Daniel Huebschmann

This package cannot yet be used with Renjin it depends on other packages which are not available: GetoptLong 0.1.7, ComplexHeatmap 1.18.1, VariantAnnotation 1.26.1, SomaticSignatures 2.16.0, dendextend 1.8.0, and gtrellis 1.12.1

Dependencies

VariantAnnotation 1.26.1 GetoptLong 0.1.7 ComplexHeatmap 1.18.1 SomaticSignatures 2.16.0 dendextend 1.8.0 gtrellis 1.12.1 GenomeInfoDb 1.16.0 circlize 0.4.4 gridExtra 2.3 PMCMR 4.3 KEGGREST 1.20.1 lsei 1.2-0 reshape2 1.4.3 corrplot 0.84 ggplot2 3.0.0 GenomicRanges 1.32.6

This package provides functions and routines useful in the analysis of somatic signatures (cf. L. Alexandrov et al., Nature 2013). In particular, functions to perform a signature analysis with known signatures (LCD = linear combination decomposition) and a signature analysis on stratified mutational catalogue (SMC = stratify mutational catalogue) are provided.

Source

R

Release History