tripr

T-cell Receptor/Immunoglobulin Profiler (TRIP)

Description

tripr is a Bioconductor package, written in shiny that provides analytics services on antigen receptor (B cell receptor immunoglobulin, BcR IG | T cell receptor, TR) gene sequence data. Every step of the analysis can be performed interactively, thus not requiring any programming skills. It takes as input the output files of the IMGT/HighV-Quest tool. Users can select to analyze the data from each of the input samples separately, or the combined data files from all samples and visualize the results accordingly.

Functions for an R command-line use are also available.

Installation

tripr is distributed as a Bioconductor package and requires R (version "4.1"), which can be installed on any operating system from CRAN, and Bioconductor (version "3.14").

To install tripr package enter the following commands in your R session:

if (!requireNamespace("BiocManager", quietly = TRUE)) {
    install.packages("BiocManager")
}

BiocManager::install("tripr", version="devel")

## Check that you have a valid Bioconductor installation
BiocManager::valid()

Launching the app

Once tripr is successfully installed, it can be loaded as follow:

library(tripr)

User Guide

Have a look at our thorough tripr user guide (on dev branch) with:

browseURL(url = "vignettes/tripr_guide.html")