pgca
PGCA: An Algorithm to Link Protein Groups Created from MS/MS Data
Bioconductor version: Release (3.20)
Protein Group Code Algorithm (PGCA) is a computationally inexpensive algorithm to merge protein summaries from multiple experimental quantitative proteomics data. The algorithm connects two or more groups with overlapping accession numbers. In some cases, pairwise groups are mutually exclusive but they may still be connected by another group (or set of groups) with overlapping accession numbers. Thus, groups created by PGCA from multiple experimental runs (i.e., global groups) are called "connected" groups. These identified global protein groups enable the analysis of quantitative data available for protein groups instead of unique protein identifiers.
Author: Gabriela Cohen-Freue <gcohen at stat.ubc.ca>
Maintainer: Gabriela Cohen-Freue <gcohen at stat.ubc.ca>
citation("pgca")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("pgca")
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("pgca")| Introduction | HTML | R Script |
| Reference Manual |
Details
| biocViews | AssayDomain, ImmunoOncology, MassSpectrometry, Proteomics, Software, WorkflowStep |
| Version | 1.30.0 |
| In Bioconductor since | BioC 3.5 (R-3.4) (7.5 years) |
| License | GPL (>= 2) |
| Depends | |
| Imports | utils, stats |
| System Requirements | |
| URL |
See More
| Suggests | knitr, testthat, rmarkdown |
| 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 | pgca_1.30.0.tar.gz |
| Windows Binary (x86_64) | pgca_1.30.0.zip |
| macOS Binary (x86_64) | pgca_1.30.0.tgz |
| macOS Binary (arm64) | pgca_1.30.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/pgca |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/pgca |
| Bioc Package Browser | https://code.bioconductor.org/browse/pgca/ |
| Package Short Url | https://bioconductor.org/packages/pgca/ |
| Package Downloads Report | Download Stats |