To install this package, start R and enter:
## try http:// if https:// URLs are not supported source("https://bioconductor.org/biocLite.R") biocLite("BiSeq")
In most cases, you don't need to download the package archive at all.
This package is for version 3.3 of Bioconductor; for the stable, up-to-date release version, see BiSeq.
Bioconductor version: 3.3
The BiSeq package provides useful classes and functions to handle and analyze targeted bisulfite sequencing (BS) data such as reduced-representation bisulfite sequencing (RRBS) data. In particular, it implements an algorithm to detect differentially methylated regions (DMRs). The package takes already aligned BS data from one or multiple samples.
Author: Katja Hebestreit, Hans-Ulrich Klein
Maintainer: Katja Hebestreit <katjah at stanford.edu>
Citation (from within R,
enter citation("BiSeq")
):
To install this package, start R and enter:
## try http:// if https:// URLs are not supported source("https://bioconductor.org/biocLite.R") biocLite("BiSeq")
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("BiSeq")
R Script | An Introduction to BiSeq | |
Reference Manual |
biocViews | DNAMethylation, Genetics, MethylSeq, Sequencing, Software |
Version | 1.12.0 |
In Bioconductor since | BioC 2.12 (R-3.0) (3.5 years) |
License | LGPL-3 |
Depends | R (>= 2.15.2), methods, S4Vectors, IRanges(>= 1.17.24), GenomicRanges, SummarizedExperiment(>= 0.2.0), Formula |
Imports | methods, BiocGenerics, Biobase, S4Vectors, IRanges, GenomeInfoDb, GenomicRanges, SummarizedExperiment, rtracklayer, parallel, betareg, lokern, Formula, globaltest |
LinkingTo | |
Suggests | |
SystemRequirements | |
Enhances | |
URL | |
Depends On Me | RRBSdata |
Imports Me | M3D |
Suggests Me | |
Build Report |
Follow Installation instructions to use this package in your R session.
Package Source | BiSeq_1.12.0.tar.gz |
Windows Binary | BiSeq_1.12.0.zip |
Mac OS X 10.9 (Mavericks) | BiSeq_1.12.0.tgz |
Subversion source | (username/password: readonly) |
Git source | https://github.com/Bioconductor-mirror/BiSeq/tree/release-3.3 |
Package Short Url | http://bioconductor.org/packages/BiSeq/ |
Package Downloads Report | Download Stats |
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