Bioconductor version: Release (3.14)
High throughput analysis of T cell antigen receptor sequences The genes encoding T cell receptors are created by somatic recombination, generating an immense combination of V, (D) and J segments. Additional processes during the recombination create extra sequence diversity between the V an J segments. Collectively, this hyper-variable region is called the CDR3 loop. The purpose of this package is to process and quantitatively analyse millions of V-CDR3-J combination, called clonotypes, from multiple sequence libraries.
Author: Charles Plessy <charles.plessy at oist.jp>
Maintainer: Charles Plessy <charles.plessy at oist.jp>
Citation (from within R,
enter citation("clonotypeR")
):
To install this package, start R (version "4.1") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("clonotypeR")
For older versions of R, please refer to the appropriate Bioconductor release.
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("clonotypeR")
HTML | R Script | clonotypeR User's Guide |
Reference Manual | ||
Text | README | |
Text | NEWS | |
Text | LICENSE |
biocViews | Sequencing, Software |
Version | 1.32.1 |
In Bioconductor since | BioC 2.13 (R-3.0) (8.5 years) |
License | file LICENSE |
Depends | |
Imports | methods |
LinkingTo | |
Suggests | BiocGenerics, edgeR, knitr, pvclust, rmarkdown, RUnit, vegan |
SystemRequirements | |
Enhances | |
URL | http://clonotyper.branchable.com/ |
BugReports | http://clonotyper.branchable.com/Bugs/ |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report |
Follow Installation instructions to use this package in your R session.
Source Package | clonotypeR_1.32.1.tar.gz |
Windows Binary | clonotypeR_1.32.1.zip |
macOS 10.13 (High Sierra) | clonotypeR_1.32.1.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/clonotypeR |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/clonotypeR |
Package Short Url | https://bioconductor.org/packages/clonotypeR/ |
Package Downloads Report | Download Stats |
Old Source Packages for BioC 3.14 | Source Archive |
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