ompBAM
This is the development version of ompBAM; for the stable release version, see ompBAM.
C++ Library for OpenMP-based multi-threaded sequential profiling of Binary Alignment Map (BAM) files
Bioconductor version: Development (3.20)
This packages provides C++ header files for developers wishing to create R packages that processes BAM files. ompBAM automates file access, memory management, and handling of multiple threads 'behind the scenes', so developers can focus on creating domain-specific functionality. The included vignette contains detailed documentation of this API, including quick-start instructions to create a new ompBAM-based package, and step-by-step explanation of the functionality behind the example packaged included within ompBAM.
Author: Alex Chit Hei Wong [aut, cre, cph]
Maintainer: Alex Chit Hei Wong <alexchwong.github at gmail.com>
citation("ompBAM")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("ompBAM")
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("ompBAM")
ompBAM API Documentation | HTML | R Script |
Reference Manual | ||
NEWS | Text | |
LICENSE | Text |
Details
biocViews | Alignment, DataImport, RNASeq, Sequencing, SingleCell, Software, Transcriptomics |
Version | 1.9.3 |
In Bioconductor since | BioC 3.15 (R-4.2) (2.5 years) |
License | MIT + file LICENSE |
Depends | |
Imports | utils, Rcpp |
System Requirements | |
URL | https://github.com/alexchwong/ompBAM |
Bug Reports | https://support.bioconductor.org/ |
See More
Suggests | RcppProgress, knitr, rmarkdown, roxygen2, devtools, usethis, desc, testthat (>= 3.0.0) |
Linking To | |
Enhances | |
Depends On Me | |
Imports Me | SpliceWiz |
Suggests Me | |
Links To Me | SpliceWiz |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | ompBAM_1.9.3.tar.gz |
Windows Binary | ompBAM_1.9.3.zip |
macOS Binary (x86_64) | ompBAM_1.9.3.tgz |
macOS Binary (arm64) | ompBAM_1.9.3.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/ompBAM |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/ompBAM |
Bioc Package Browser | https://code.bioconductor.org/browse/ompBAM/ |
Package Short Url | https://bioconductor.org/packages/ompBAM/ |
Package Downloads Report | Download Stats |