Rhtslib

DOI: 10.18129/B9.bioc.Rhtslib  

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

HTSlib high-throughput sequencing library as an R package

Bioconductor version: 3.16

This package provides version 1.15.1 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]

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

Installation

To install this package, start R (version "4.2") 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")

 

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

Details

biocViews	DataImport, Sequencing, Software
Version	2.0.0
In Bioconductor since	BioC 3.1 (R-3.2) (8 years)
License	LGPL (>= 2)
Depends
Imports	zlibbioc
LinkingTo	zlibbioc
Suggests	knitr, rmarkdown, BiocStyle
SystemRequirements	libbz2 & liblzma & libcurl (with header files), GNU make
Enhances
URL	https://bioconductor.org/packages/Rhtslib http://www.htslib.org/
BugReports	https://github.com/Bioconductor/Rhtslib/issues
Depends On Me
Imports Me	deepSNV, diffHic, maftools, mitoClone2, scPipe
Suggests Me
Links To Me	ArrayExpressHTS, bamsignals, BitSeq, csaw, deepSNV, DiffBind, diffHic, epialleleR, FLAMES, h5vc, maftools, methylKit, mitoClone2, podkat, qrqc, QuasR, Rfastp, Rsamtools, scPipe, seqbias, ShortRead, TransView, VariantAnnotation
Build Report

Package Archives

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

Source Package	Rhtslib_2.0.0.tar.gz
Windows Binary	Rhtslib_2.0.0.zip (64-bit only)
macOS Binary (x86_64)	Rhtslib_2.0.0.tgz
macOS Binary (arm64)	Rhtslib_2.0.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/Rhtslib
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/Rhtslib
Bioc Package Browser	https://code.bioconductor.org/browse/Rhtslib/
Package Short Url	https://bioconductor.org/packages/Rhtslib/
Package Downloads Report	Download Stats