Rhtslib

This is the released version of Rhtslib; for the devel version, see Rhtslib.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1

HTSlib high-throughput sequencing library as an R package

Bioconductor version: Release (3.23)

This package provides version 1.18 of the 'HTSlib' C library for high-throughput sequence analysis. The package is primarily useful to developers of other R packages who wish to make use of HTSlib. Motivation and instructions for use of this package are in the vignette, vignette(package="Rhtslib", "Rhtslib").

Author: Nathaniel Hayden [led, aut], Martin Morgan [aut], Hervé Pagès [aut, cre], Tomas Kalibera [ctb], Jeroen Ooms [ctb]

Maintainer: Hervé Pagès <hpages.on.github at gmail.com>

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

Nathaniel Hayden, Martin Morgan, Hervé Pagès. Rhtslib: HTSlib high-throughput sequencing library as an R package. doi:10.18129/B9.bioc.Rhtslib, R package version 3.8.0, https://bioconductor.org/packages/Rhtslib.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("Rhtslib")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("Rhtslib")

Motivation and use of Rhtslib	HTML	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	DataImport, Sequencing, Software
Version	3.8.0
In Bioconductor since	BioC 3.1 (R-3.2) (11.5 years)
License	LGPL (>= 2)
Depends
Imports	tools
System Requirements	libbz2 & liblzma & libcurl (with header files), GNU make
URL	https://bioconductor.org/packages/Rhtslib http://www.htslib.org/
Bug Reports	https://github.com/Bioconductor/Rhtslib/issues

Suggests	knitr, rmarkdown, BiocStyle
Linking To
Enhances
Depends On Me
Imports Me	deepSNV, diffHic, maftools, mitoClone2, scPipe, stPipe
Suggests Me
Links To Me	bamsignals, csaw, deepSNV, DiffBind, diffHic, epialleleR, FLAMES, h5vc, iscream, jackalope, maftools, methylKit, mitoClone2, podkat, QuasR, raer, Rfastp, Rsamtools, scPipe, ShortRead, stPipe, VariantAnnotation
Build Report	Build Report, r-universe

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	Rhtslib_3.8.0.tar.gz
Windows Binary (x86_64)	Rhtslib_3.8.0.zip (64-bit only)
macOS Binary (big-sur-x86_64)	Rhtslib_3.8.0.tgz
macOS Binary (sonoma-arm64)	Rhtslib_3.8.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/Rhtslib
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/Rhtslib
Package Short Url	https://bioconductor.org/packages/Rhtslib/
Package Downloads Report	Download Stats