proBAMr
This package is for version 3.19 of Bioconductor; for the stable, up-to-date release version, see proBAMr.
Generating SAM file for PSMs in shotgun proteomics data
Bioconductor version: 3.19
Mapping PSMs back to genome. The package builds SAM file from shotgun proteomics data The package also provides function to prepare annotation from GTF file.
Author: Xiaojing Wang
Maintainer: Xiaojing Wang <xiaojing.wang at vanderbilt.edu>
Citation (from within R, enter
citation("proBAMr")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("proBAMr")
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("proBAMr")| Introduction to proBAMr | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | ImmunoOncology, MassSpectrometry, Proteomics, Software, Visualization |
| Version | 1.38.0 |
| In Bioconductor since | BioC 3.0 (R-3.1) (10 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.0.1), IRanges, AnnotationDbi |
| Imports | GenomicRanges, Biostrings, GenomicFeatures, txdbmaker, rtracklayer |
| System Requirements | |
| URL |
See More
| Suggests | RUnit, BiocGenerics |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | proBAMr_1.38.0.tar.gz |
| Windows Binary (x86_64) | proBAMr_1.38.0.zip |
| macOS Binary (x86_64) | proBAMr_1.38.0.tgz |
| macOS Binary (arm64) | proBAMr_1.38.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/proBAMr |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/proBAMr |
| Bioc Package Browser | https://code.bioconductor.org/browse/proBAMr/ |
| Package Short Url | https://bioconductor.org/packages/proBAMr/ |
| Package Downloads Report | Download Stats |