pepXMLTab
This is the development version of pepXMLTab; for the stable release version, see pepXMLTab.
Parsing pepXML files and filter based on peptide FDR.
Bioconductor version: Development (3.21)
Parsing pepXML files based one XML package. The package tries to handle pepXML files generated from different softwares. The output will be a peptide-spectrum-matching tabular file. The package also provide function to filter the PSMs based on FDR.
Author: Xiaojing Wang
Maintainer: Xiaojing Wang <xiaojing.wang at vanderbilt.edu>
citation("pepXMLTab")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("pepXMLTab")
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("pepXMLTab")| Introduction to pepXMLTab | R Script | |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | ImmunoOncology, MassSpectrometry, Proteomics, Software |
| Version | 1.41.0 |
| In Bioconductor since | BioC 3.0 (R-3.1) (10 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.0.1) |
| Imports | XML (>= 3.98-1.1) |
| 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 | pepXMLTab_1.41.0.tar.gz |
| Windows Binary (x86_64) | pepXMLTab_1.41.0.zip (64-bit only) |
| macOS Binary (x86_64) | pepXMLTab_1.41.0.tgz |
| macOS Binary (arm64) | pepXMLTab_1.41.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/pepXMLTab |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/pepXMLTab |
| Bioc Package Browser | https://code.bioconductor.org/browse/pepXMLTab/ |
| Package Short Url | https://bioconductor.org/packages/pepXMLTab/ |
| Package Downloads Report | Download Stats |