ClustIRR

DOI: 10.18129/B9.bioc.ClustIRR  

Clustering of immune receptor repertoires

Bioconductor version: Release (3.18)

ClustIRR is a quantitative method for clustering of immune receptor repertoires (IRRs). The algorithm identifies groups of T or B cell receptors (TCRs or BCRs) with similar specificity by comparing their sequences. ClustIRR uses graphs to visualize the specificity structures of IRRs.

Author: Simo Kitanovski [aut, cre] , Kai Wollek [aut]

Maintainer: Simo Kitanovski <simokitanovski at gmail.com>

Installation

To install this package, start R (version "4.3") and enter:

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

BiocManager::install("ClustIRR")

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("ClustIRR")

 

HTML	R Script	Introduction to ClustIRR
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	Classification, Clustering, ImmunoOncology, SingleCell, Software
Version	1.0.0
In Bioconductor since	BioC 3.18 (R-4.3) (< 6 months)
License	GPL-3 + file LICENSE
Depends	R (>= 4.3.0)
Imports	stringdist, future, future.apply, methods, stats, utils, igraph, visNetwork
LinkingTo
Suggests	BiocStyle, knitr, testthat, ggplot2, patchwork, ggrepel
SystemRequirements
Enhances
URL	https://github.com/snaketron/ClustIRR
BugReports	https://github.com/snaketron/ClustIRR/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	ClustIRR_1.0.0.tar.gz
Windows Binary	ClustIRR_1.0.0.zip
macOS Binary (x86_64)	ClustIRR_1.0.0.tgz
macOS Binary (arm64)	ClustIRR_1.0.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/ClustIRR
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/ClustIRR
Bioc Package Browser	https://code.bioconductor.org/browse/ClustIRR/
Package Short Url	https://bioconductor.org/packages/ClustIRR/
Package Downloads Report	Download Stats
Old Source Packages for BioC 3.18	Source Archive