proteasy

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

This package is for version 3.19 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see proteasy.

Protease Mapping


Bioconductor version: Release (3.19)

Retrieval of experimentally derived protease- and cleavage data derived from the MEROPS database. Proteasy contains functions for mapping peptide termini to known sites where a protease cleaves. This package also makes it possible to quickly look up known substrates based on a list of (potential) proteases, or vice versa - look up proteases based on a list of substrates.

Author: Martin Rydén [aut, cre]

Maintainer: Martin Rydén <martin.ryden at med.lu.se>

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

Installation

To install this package, start R (version "4.4") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("proteasy")

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("proteasy")
Using proteasy to Retrieve and Analyze Protease Data HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews BiomedicalInformatics, FunctionalGenomics, Proteomics, Software
Version 1.6.0
In Bioconductor since BioC 3.16 (R-4.2) (2 years)
License GPL-3
Depends R (>= 4.2.0)
Imports data.table, stringr, ensembldb, AnnotationFilter, EnsDb.Hsapiens.v86, EnsDb.Mmusculus.v79, EnsDb.Rnorvegicus.v79, Rcpi, methods, utils
System Requirements
URL https://github.com/martinry/proteasy
Bug Reports https://github.com/martinry/proteasy/issues
See More
Suggests BiocStyle, knitr, rmarkdown, igraph, ComplexHeatmap, viridis
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Package Archives

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

Source Package proteasy_1.6.0.tar.gz
Windows Binary (x86_64) proteasy_1.6.0.zip
macOS Binary (x86_64) proteasy_1.6.0.tgz
macOS Binary (arm64) proteasy_1.6.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/proteasy
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/proteasy
Package Short Url https://bioconductor.org/packages/proteasy/
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