BioConductor

qsea 1.6.0

IP-seq data analysis and vizualization

Released Mar 22, 2018 by Matthias Lienhard

This package cannot yet be used with Renjin it depends on other packages which are not available: rtracklayer 1.40.5 and BSgenome 1.48.0

Dependencies

rtracklayer 1.40.5 BSgenome 1.48.0 GenomeInfoDb 1.16.0 gtools 3.8.1 BiocParallel 1.14.2 Rsamtools 1.32.3 HMMcopy 1.22.0 Biostrings 2.48.0 GenomicRanges 1.32.6 BiocGenerics 0.26.0 zoo 1.8-3 IRanges 2.14.10 limma 3.36.2

qsea (quantitative sequencing enrichment analysis) was developed as the successor of the MEDIPS package for analyzing data derived from methylated DNA immunoprecipitation (MeDIP) experiments followed by sequencing (MeDIP-seq). However, qsea provides several functionalities for the analysis of other kinds of quantitative sequencing data (e.g. ChIP-seq, MBD-seq, CMS-seq and others) including calculation of differential enrichment between groups of samples.

Source

R
C

Release History