tripr

T-cell Receptor/Immunoglobulin Profiler (TRIP)

Bioconductor version: 3.23 · Package version: 1.18.0

TRIP is a software framework that provides analytics services on antigen receptor (B cell receptor immunoglobulin, BcR IG | T cell receptor, TR) gene sequence data. It is a web application written in R Shiny. 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.

Installation

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("tripr")

Details

Maintainer	Nikolaos Pechlivanis <inab.bioinformatics@lists.certh.gr>
Author	Maria Th. Kotouza [aut], Katerina Gemenetzi [aut], Chrysi Galigalidou [aut], Elisavet Vlachonikola [aut], Nikolaos Pechlivanis [cre], Andreas Agathangelidis [aut], Raphael Sandaltzopoulos [aut], Pericles A. Mitkas [aut], Kostas Stamatopoulos [aut], Anastasia Chatzidimitriou [aut], Fotis E. Psomopoulos [aut], Iason Ofeidis [aut], Aspasia Orfanou [aut]
License	MIT + file LICENSE
URL	https://github.com/BiodataAnalysisGroup/tripr
Bug Reports	https://github.com/BiodataAnalysisGroup/tripr/issues
Downloads rank	244
Source branch	RELEASE_3_23
biocViews	BatchEffect, GeneExpression, ImmunoOncology, MultipleComparison, Software, TargetedResequencing

Documentation

tripr User Guide

Download

Source package

Dependencies

Depends: R (>= 4.1.0), shiny (>= 1.6.0), shinyBS

Imports: shinyjs, shinyFiles, plyr, data.table, DT, stringr, stringdist, plot3D, gridExtra, RColorBrewer, plotly, dplyr, config (>= 0.3.1), golem (>= 0.3.1), methods, grDevices, graphics, stats, utils, vegan

Suggests: BiocGenerics, shinycssloaders, tidyverse, BiocManager, Biostrings, xtable, rlist, motifStack, knitr, rmarkdown, testthat (>= 3.0.0), fs, BiocStyle, RefManageR, biocthis

Enhances: parallel