Other packages > Find by keyword >

ClusTCR2  

Identifying Similar T Cell Receptor Hyper-Variable Sequences with 'ClusTCR2'
View on CRAN: Click here


Download and install ClusTCR2 package within the R console
Install from CRAN:
install.packages("ClusTCR2")

Install from Github:
library("remotes")
install_github("cran/ClusTCR2")

Install by package version:
library("remotes")
install_version("ClusTCR2", "1.7.3.01")



Attach the package and use:
library("ClusTCR2")
Maintained by
Kerry A. Mullan
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2024-05-16
Latest Update: 2024-05-16
Description:
Enhancing T cell receptor (TCR) sequence analysis, 'ClusTCR2', based on 'ClusTCR' python program, leverages Hamming distance to compare the complement-determining region three (CDR3) sequences for sequence similarity, variable gene (V gene) and length. The second step employs the Markov Cluster Algorithm to identify clusters within an undirected graph, providing a summary of amino acid motifs and matrix for generating network plots. Tailored for single-cell RNA-seq data with integrated TCR-seq information, 'ClusTCR2' is integrated into the Single Cell TCR and Expression Grouped Ontologies (STEGO) R application or 'STEGO.R'. See the two publications for more details. Sebastiaan Valkiers, Max Van Houcke, Kris Laukens, Pieter Meysman (2021) <doi:10.1093/bioinformatics/btab446>, Kerry A. Mullan, My Ha, Sebastiaan Valkiers, Nicky de Vrij, Benson Ogunjimi, Kris Laukens, Pieter Meysman (2023) <doi:10.1101/2023.09.27.559702>.
How to cite:
Kerry A. Mullan (2024). ClusTCR2: Identifying Similar T Cell Receptor Hyper-Variable Sequences with 'ClusTCR2'. R package version 1.7.3.01, https://cran.r-project.org/web/packages/ClusTCR2. Accessed 25 Jun. 2026.
Previous versions and publish date:
No previous versions
Other packages that cited ClusTCR2 R package
View ClusTCR2 citation profile
Other R packages that ClusTCR2 depends, imports, suggests or enhances
Complete documentation for ClusTCR2
Functions, R codes and Examples using the ClusTCR2 R package
Full ClusTCR2 package functions and examples
Downloads during the last 30 days

Today's Hot Picks in Authors and Packages

airGRiwrm  
'airGR' Integrated Water Resource Management
Semi-distributed Precipitation-Runoff Modelling based on 'airGR' package models integrating human i ...
Download / Learn more Package Citations See dependency  
sitmo  
Parallel Pseudo Random Number Generator (PPRNG) 'sitmo' Header Files
Provided within are two high quality and fast PPRNGs that may be used in an 'OpenMP' parallel enviro ...
Download / Learn more Package Citations See dependency  
edeaR  
Exploratory and Descriptive Event-Based Data Analysis
Exploratory and descriptive analysis of event based data. Provides methods for describing and select ...
Download / Learn more Package Citations See dependency  
quickcode  
Quick and Essential 'R' Tricks for Better Scripts
The NOT functions, 'R' tricks and a compilation of some simple quick plus often used 'R' codes to im ...
Download / Learn more Package Citations See dependency  
foster  
Forest Structure Extrapolation with R
Set of tools to streamline the modeling of the relationship betweensatellite imagery time series or ...
Download / Learn more Package Citations See dependency  

27,535

R Packages

236,180

Dependencies

73,223

Author Associations

27,536

Publication Badges

© Copyright since 2022. All right reserved, rpkg.net.  Based in Cambridge, Massachusetts, USA