tripr
This is the development version of tripr; for the stable release version, see tripr.
T-cell Receptor/Immunoglobulin Profiler (TRIP)
Bioconductor version: Development (3.24)
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.
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]
Maintainer: Nikolaos Pechlivanis <inab.bioinformatics at lists.certh.gr>
citation("tripr")):Maria Th. Kotouza, Katerina Gemenetzi, Chrysi Galigalidou, Elisavet Vlachonikola, Andreas Agathangelidis, Raphael Sandaltzopoulos, Pericles A. Mitkas, Kostas Stamatopoulos, Anastasia Chatzidimitriou, Fotis E. Psomopoulos, Iason Ofeidis, Aspasia Orfanou. tripr: T-cell Receptor/Immunoglobulin Profiler (TRIP). doi:10.18129/B9.bioc.tripr, R package version 1.19.0, https://bioconductor.org/packages/tripr.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("tripr")For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("tripr")| tripr User Guide | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | BatchEffect, GeneExpression, ImmunoOncology, MultipleComparison, Software, TargetedResequencing |
| Version | 1.19.0 |
| In Bioconductor since | BioC 3.14 (R-4.1) (5 years) |
| License | MIT + file LICENSE |
| 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 |
| System Requirements | |
| URL | https://github.com/BiodataAnalysisGroup/tripr |
| Bug Reports | https://github.com/BiodataAnalysisGroup/tripr/issues |
See More
| Suggests | BiocGenerics, shinycssloaders, tidyverse, BiocManager, Biostrings, xtable, rlist, motifStack, knitr, rmarkdown, testthat (>= 3.0.0), fs, BiocStyle, RefManageR, biocthis |
| Linking To | |
| Enhances | parallel |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report, r-universe |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | tripr_1.19.0.tar.gz |
| Windows Binary (x86_64) | tripr_1.19.0.zip |
| macOS Binary (big-sur-x86_64) | tripr_1.19.0.tgz |
| macOS Binary (sonoma-arm64) | tripr_1.19.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/tripr |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/tripr |
| Package Short Url | https://bioconductor.org/packages/tripr/ |
| Package Downloads Report | Download Stats |