# --------------------------------------------
# CITATION file created with {cffr} R package
# See also: https://docs.ropensci.org/cffr/
# --------------------------------------------
 
cff-version: 1.2.0
message: 'To cite package "bcSeq" in publications use:'
type: software
license: GPL-2.0-or-later
title: 'bcSeq: Fast Sequence Mapping in High-Throughput shRNA and CRISPR Screens'
version: 1.27.0
doi: 10.1093/bioinformatics/bty402
identifiers:
- type: doi
  value: 10.32614/CRAN.package.bcSeq
abstract: This Rcpp-based package implements a highly efficient data structure and
  algorithm for performing alignment of short reads from CRISPR or shRNA screens to
  reference barcode library. Sequencing error are considered and matching qualities
  are evaluated based on Phred scores. A Bayes' classifier is employed to predict
  the originating barcode of a read. The package supports provision of user-defined
  probability models for evaluating matching qualities. The package also supports
  multi-threading.
authors:
- family-names: Lin
  given-names: Jiaxing
  email: jiaxing.lin@duke.edu
- family-names: Gresham
  given-names: Jeremy
- family-names: Xie
  given-names: Jichun
- family-names: Owzar
  given-names: Kouros
preferred-citation:
  type: article
  title: 'bcSeq: An R Package for Fast Sequence Mapping in High-Throughput shRNA and
    CRISPR Screens'
  authors:
  - family-names: Lin
    given-names: Jiaxing
    email: jiaxing.lin@duke.edu
  - family-names: Gresham
    given-names: Jeremy
  - family-names: Wang
    given-names: Tongrong
  - family-names: Kim
    given-names: So Young
  - family-names: Alvarez
    given-names: James
  - family-names: Damrauer
    given-names: Jeffrey S.
  - family-names: Floyd
    given-names: Scott
  - family-names: Granek
    given-names: Joshua
  - family-names: Allen
    given-names: Andrew
  - family-names: Chan
    given-names: Cliburn
  - family-names: Xie
    given-names: Jichun
  - family-names: Owzar
    given-names: Kouros
  year: '2018'
  journal: Bioinformatics
  volume: '34'
  issue: '11'
  doi: 10.1093/bioinformatics/bty402
  url: http://dx.doi.org/10.1093/bioinformatics/bty402
  start: bty402
repository: https://bioc.r-universe.dev
repository-code: https://github.com/jl354/bcSeq
commit: b384e6c8a0f6a7384967392c5b250424722d875d
url: https://support.bioconductor.org
date-released: '2019-07-18'
contact:
- family-names: Lin
  given-names: Jiaxing
  email: jiaxing.lin@duke.edu