ClustIRR
This package is for version 3.19 of Bioconductor; for the stable, up-to-date release version, see ClustIRR.
Clustering of immune receptor repertoires
Bioconductor version: 3.19
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 possibly similar specificity directly from the sequences of their complementarity determining regions. 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>
citation("ClustIRR")):
Installation
To install this package, start R (version "4.4") 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")| Introduction to ClustIRR | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | Classification, Clustering, ImmunoOncology, SingleCell, Software |
| Version | 1.2.0 |
| In Bioconductor since | BioC 3.18 (R-4.3) (1 year) |
| License | GPL-3 + file LICENSE |
| Depends | R (>= 4.3.0) |
| Imports | stringdist, methods, stats, utils, igraph, visNetwork, blaster, pwalign, grDevices, parallel |
| System Requirements | |
| URL | https://github.com/snaketron/ClustIRR |
| Bug Reports | https://github.com/snaketron/ClustIRR/issues |
See More
| Suggests | BiocStyle, knitr, testthat, ggplot2, patchwork, ggrepel |
| 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 | ClustIRR_1.2.0.tar.gz |
| Windows Binary (x86_64) | ClustIRR_1.2.0.zip |
| macOS Binary (x86_64) | ClustIRR_1.2.0.tgz |
| macOS Binary (arm64) | ClustIRR_1.2.0.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 |