Rhtslib

This package is for version 3.15 of Bioconductor; for the stable, up-to-date release version, see Rhtslib.

HTSlib high-throughput sequencing library as an R package

Bioconductor version: 3.15

This package provides version 1.7 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], Bioconductor Package Maintainer [cre]

Maintainer: Bioconductor Package Maintainer <maintainer at bioconductor.org>

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

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")

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 1.28.0

In Bioconductor since BioC 3.1 (R-3.2) (9 years)

License LGPL (>= 2)

Depends

Imports zlibbioc

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 zlibbioc

Enhances

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 Build Report

Package Archives

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

Source Package Rhtslib_1.28.0.tar.gz

Windows Binary Rhtslib_1.28.0.zip (64-bit only)

macOS Binary (x86_64) Rhtslib_1.28.0.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

Old Source Packages for BioC 3.15 Source Archive