- Home
- Bioconductor 3.3
- Software Packages
- clonotypeR
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("clonotypeR")
In most cases, you don't need to download the package archive at all.
clonotypeR
|
|
|
|
|
|
|
|
High throughput analysis of T cell antigen receptor sequences
Bioconductor version: Release (3.3)
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 <plessy at riken.jp>
Maintainer: Charles Plessy <plessy at riken.jp>
Citation (from within R,
enter citation("clonotypeR")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("clonotypeR")
Documentation
| HTML | R Script | clonotypeR User's Guide |
| Reference Manual | ||
| Text | README | |
| Text | NEWS | |
| Text | LICENSE |
Details
| biocViews | Sequencing, Software |
| Version | 1.10.2 |
| In Bioconductor since | BioC 2.13 (R-3.0) (3 years) |
| License | file LICENSE |
| Depends | |
| Imports | methods |
| LinkingTo | |
| Suggests | BiocGenerics, edgeR, knitr, pvclust, RUnit, vegan |
| SystemRequirements | |
| Enhances | |
| URL | http://clonotyper.branchable.com/ |
| BugReports | http://clonotyper.branchable.com/Bugs/ |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | clonotypeR_1.10.2.tar.gz |
| Windows Binary | clonotypeR_1.10.2.zip |
| Mac OS X 10.9 (Mavericks) | clonotypeR_1.10.2.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/clonotypeR/tree/release-3.3 |
| Package Short Url | http://bioconductor.org/packages/clonotypeR/ |
| Package Downloads Report | Download Stats |
Documentation »
Bioconductor
- Package vignettes and manuals.
- Workflows for learning and use.
- Course and conference material.
- Videos.
- Community resources and tutorials.
R / CRAN packages and documentation
Support »
Please read the posting guide. Post questions about Bioconductor to one of the following locations:
- Support site - for questions about Bioconductor packages
- Bioc-devel mailing list - for package developers
