BioConductor
gcapc 1.4.0
GC Aware Peak Caller
Released May 1, 2018 by Mingxiang Teng
This package cannot yet be used with Renjin it depends on other packages which are not available: BSgenome 1.48.0
Dependencies
BSgenome 1.48.0 GenomeInfoDb 1.16.0 GenomicAlignments 1.16.0 Biostrings 2.48.0 GenomicRanges 1.32.6 BiocGenerics 0.26.0 MASS 7.3-50 IRanges 2.14.10 matrixStats 0.54.0 S4Vectors 0.18.3 Rsamtools 1.32.3
Peak calling for ChIP-seq data with consideration of potential GC bias in sequencing reads. GC bias is first estimated with generalized linear mixture models using effective GC strategy, then applied into peak significance estimation.