bsseq pipeline

bsseq specifications


Unique identifier OMICS_00581
Name bsseq
Alternative name BSmooth
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License Artistic License version 2.0
Computer skills Advanced
Version 1.14
Stability Stable
Requirements methods, BiocGenerics, GenomicRanges, SummarizedExperiment, parallel
Maintained Yes



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  • person_outline Kasper Daniel Hansen <>
  • person_outline Rafael A. Irizarry <>
  • person_outline Benjamin Langmead <>

Publication for bsseq

bsseq citation

PMCID: 4926291

[…] only sites covered by all samples are comparable. to enable the comparison, the comparing statistics such as methylation difference, t-score from t test or p value is needed in the testing. in the bsmooth software, a beta-binomial is assumed to be the suitable model for replicated bisulfite sequencing data. the observation is assumed to be binomially distributed, whereas the methylated […]

bsseq institution(s)
Department of Biostatistics, Johns Hopkins Bloomberg School of Public Health, Baltimore, MD, USA; Center for Epigenetics, Johns Hopkins University School of Medicine, Baltimore, MD, USA
bsseq funding source(s)
Partially supported by HG004059 and P50HG003233.

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