DOI: 10.18129/B9.bioc.CellBarcode    

This is the development version of CellBarcode; for the stable release version, see CellBarcode.

Cellular DNA Barcode Analysis toolkit

Bioconductor version: Development (3.15)

This package performs Cellular DNA Barcode (genetic lineage tracing) analysis. The package can handle all kinds of DNA barcodes, as long as the barcode within a single sequencing read and has a pattern which can be matched by a regular expression. This package can handle barcode with flexible length, with or without UMI (unique molecular identifier). This tool also can be used for pre-processing of some amplicon data such as CRISPR gRNA screening, immune repertoire sequencing and meta genome data.

Author: Wenjie Sun [cre], Anne-Marie Lyne [aut], Leila Perie [aut]

Maintainer: Wenjie Sun <sunwjie at gmail.com>

Citation (from within R, enter citation("CellBarcode")):


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

if (!requireNamespace("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:



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biocViews CRISPR, Preprocessing, QualityControl, Sequencing, Software
Version 1.1.0
In Bioconductor since BioC 3.14 (R-4.1) (< 6 months)
License MIT + file LICENSE
Depends R (>= 4.1.0)
Imports methods, stats, Rcpp (>= 1.0.5), data.table (>= 1.12.6), plyr, ggplot2, stringr, magrittr, ShortRead(>= 1.48.0), Biostrings(>= 2.58.0), egg, Ckmeans.1d.dp, utils, S4Vectors
LinkingTo Rcpp
Suggests BiocStyle, testthat (>= 3.0.0), knitr, rmarkdown
Depends On Me
Imports Me
Suggests Me
Links To Me
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Follow Installation instructions to use this package in your R session.

Source Package CellBarcode_1.1.0.tar.gz
Windows Binary
macOS 10.13 (High Sierra) CellBarcode_1.1.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/CellBarcode
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/CellBarcode
Package Short Url https://bioconductor.org/packages/CellBarcode/
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