barcodetrackR
This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.
This package is for version 3.23 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see barcodetrackR.
Functions for Analyzing Cellular Barcoding Data
Bioconductor version: Release (3.23)
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>
citation("barcodetrackR")):Diego Alexander Espinoza, Ryland Mortlock. barcodetrackR: Functions for Analyzing Cellular Barcoding Data. doi:10.18129/B9.bioc.barcodetrackR, R package version 1.20.0, https://bioconductor.org/packages/barcodetrackR.
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")
BiocManager::install("barcodetrackR")For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
| No vignettes available | |
| Reference Manual |
Details
| biocViews | Sequencing, Software, Visualization |
| Version | 1.20.0 |
| In Bioconductor since | BioC 3.13 (R-4.1) (5.5 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 |
| System Requirements | |
| URL | https://github.com/dunbarlabNIH/barcodetrackR |
See More
| Suggests | BiocStyle, knitr, magick, rmarkdown, testthat |
| Linking To | |
| Enhances | |
| 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 | |
| Windows Binary (x86_64) | |
| macOS Binary (big-sur-x86_64) | |
| macOS Binary (sonoma-arm64) | |
| 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 |