Package: bcSeq
Type: Package
Title: Fast Sequence Mapping in High-Throughput shRNA and CRISPR
        Screens
Version: 1.10.0
Date: 2019-07-18
Authors@R: c(person("Jiaxing","Lin", role = c("aut", "cre"), 
            email = "jiaxing.lin@duke.edu"), 
            person("Jeremy", "Gresham", role = "aut"),
            person("Jichun", "Xie", role = "aut"),
            person("Kouros", "Owzar", role = "aut"),
            person("Tongrong", "Wang", role = "ctb"),
            person("So Young", "Kim", role = "ctb"),
            person("James", "Alvarez", role = "ctb"),
            person("Jeffrey S.", "Damrauer", role = "ctb"),
            person("Scott", "Floyd", role = "ctb"),
            person("Joshua", "Granek", role = "ctb"),
            person("Andrew", "Allen", role = "ctb"),
            person("Cliburn", "Chan", role = "ctb"))		   	
Author: Jiaxing Lin [aut, cre],
        Jeremy Gresham [aut],
        Jichun Xie [aut],
        Kouros Owzar [aut],
        Tongrong Wang [ctb],
        So Young Kim [ctb], 
        James Alvarez [ctb], 
        Jeffrey S. Damrauer [ctb],
        Scott Floyd [ctb], 
        Joshua Granek [ctb], 
        Andrew Allen [ctb],
        Cliburn Chan [ctb]
Maintainer: Jiaxing Lin <jiaxing.lin@duke.edu>
Description: 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.
License: GPL (>= 2)
biocViews: ImmunoOncology, Alignment, CRISPR, Sequencing,
        SequenceMatching, MultipleSequenceAlignment, Software, ATACSeq
URL: https://github.com/jl354/bcSeq
Imports: Rcpp (>= 0.12.12), Matrix, Biostrings
Depends: R (>= 3.4.0)
LinkingTo: Rcpp, Matrix
BugReports: https://support.bioconductor.org
Suggests: knitr
VignetteBuilder: knitr
BuildVignettes: yes
NeedsCompilation: yes
git_url: https://git.bioconductor.org/packages/bcSeq
git_branch: RELEASE_3_11
git_last_commit: 1f1ce58
git_last_commit_date: 2020-04-27
Date/Publication: 2020-04-27
Packaged: 2020-04-28 05:47:50 UTC; biocbuild
Built: R 4.0.0; i386-w64-mingw32; 2020-04-28 17:51:49 UTC; windows
Archs: i386, x64
