Package: CellBarcode
Type: Package
Title: Cellular DNA Barcode Analysis toolkit
Version: 1.15.0
Authors@R: c(
  person("Wenjie", "Sun", email = "[email protected]", role = c("cre", "aut"), comment=c(ORCID="0000-0002-3100-2346")),
  person("Anne-Marie", "Lyne", email = "[email protected]", role = "aut"),
  person("Leila", "Perie", email = "[email protected]", role = "aut")
  )
Description: 
  The package CellBarcode performs Cellular DNA Barcode analysis. It can handle
  all kinds of DNA barcodes, as long as the barcode is within a single sequencing
  read and has a pattern that can be matched by a regular expression.
  \code{CellBarcode} can handle barcodes with flexible lengths, with or without
  UMI (unique molecular identifier). This tool also can be used for pre-processing
  some amplicon data such as CRISPR gRNA screening, immune repertoire sequencing,
  and metagenome data.  
License: Artistic-2.0
Encoding: UTF-8
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,
  seqinr,
  Rsamtools
LinkingTo: Rcpp, BH
RoxygenNote: 7.3.2
Suggests: BiocStyle, testthat (>= 3.0.0), knitr, rmarkdown
biocViews: Preprocessing, QualityControl, Sequencing, CRISPR
Config/testthat/edition: 3
VignetteBuilder: knitr
NeedsCompilation: yes
URL: https://wenjie1991.github.io/CellBarcode/
BugReports: https://github.com/wenjie1991/CellBarcode/issues