barcodetrackR

DOI: 10.18129/B9.bioc.barcodetrackR    

This package is for version 3.15 of Bioconductor; for the stable, up-to-date release version, see barcodetrackR.

Functions for Analyzing Cellular Barcoding Data

Bioconductor version: 3.15

barcodetrackR is an R package developed for the analysis and visualization of clonal tracking data. Data required is samples and tag abundances in matrix form. Usually from cellular barcoding experiments, integration site retrieval analyses, or similar technologies.

Author: Diego Alexander Espinoza [aut, cre], Ryland Mortlock [aut]

Maintainer: Diego Alexander Espinoza <diego.espinoza at pennmedicine.upenn.edu>

Installation

To install this package, start R (version "4.2") and enter:

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

BiocManager::install("barcodetrackR")

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("barcodetrackR")

 

HTML	R Script	barcodetrackR
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	Sequencing, Software, Visualization
Version	1.4.0
In Bioconductor since	BioC 3.13 (R-4.1) (1.5 years)
License	file LICENSE
Depends	R (>= 4.1)
Imports	cowplot, circlize, dplyr, ggplot2, ggdendro, ggridges, graphics, grDevices, magrittr, plyr, proxy, RColorBrewer, rlang, scales, shiny, stats, SummarizedExperiment, S4Vectors, tibble, tidyr, vegan, viridis, utils
LinkingTo
Suggests	BiocStyle, knitr, magick, rmarkdown, testthat
SystemRequirements
Enhances
URL	https://github.com/dunbarlabNIH/barcodetrackR
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	barcodetrackR_1.4.0.tar.gz
Windows Binary	barcodetrackR_1.4.0.zip
macOS Binary (x86_64)	barcodetrackR_1.4.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/barcodetrackR
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/barcodetrackR
Package Short Url	https://bioconductor.org/packages/barcodetrackR/
Package Downloads Report	Download Stats