DOI: 10.18129/B9.bioc.bamsignals  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see bamsignals.

Extract read count signals from bam files

Bioconductor version: 3.16

This package allows to efficiently obtain count vectors from indexed bam files. It counts the number of reads in given genomic ranges and it computes reads profiles and coverage profiles. It also handles paired-end data.

Author: Alessandro Mammana [aut, cre], Johannes Helmuth [aut]

Maintainer: Johannes Helmuth <johannes.helmuth at>

Citation (from within R, enter citation("bamsignals")):


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biocViews Alignment, Coverage, DataImport, Sequencing, Software
Version 1.30.0
In Bioconductor since BioC 3.1 (R-3.2) (8 years)
License GPL-2
Depends R (>= 3.5.0)
Imports methods, BiocGenerics, Rcpp (>= 0.10.6), IRanges, GenomicRanges, zlibbioc
LinkingTo Rcpp, Rhtslib(>= 1.13.1), zlibbioc
Suggests testthat (>= 0.9), Rsamtools, BiocStyle, knitr, rmarkdown
SystemRequirements GNU make
Depends On Me
Imports Me AneuFinder, chromstaR, DNAfusion, epigraHMM, karyoploteR, normr, segmenter
Suggests Me
Links To Me
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