Package: gCrisprTools
Type: Package
Title: Suite of Functions for Pooled Crispr Screen QC and Analysis
Version: 2.19.0
Date: 2026-03-24
Author: Russell Bainer, Dariusz Ratman, Steve Lianoglou, Peter Haverty
Authors@R: c(
    person("Russell", "Bainer", , "russ.bainer@gmail.com", c("aut", "cre", "fnd"), comment = "2026+"),
    person("Dariusz", "Ratman", , "ratmand@roche.com", "aut"),
    person("Peter", "Haverty", , "havertypm@gmail.com", "aut"),
    person("Steve", "Lianoglou", , "slianoglou@gmail.com", "aut"),
    person("Light Horse Therapeutics", role = c("fnd"), comment = "2023-2025"),
    person("Maze Therapeutics", role = c("fnd"), comment = "2019 - 2023"),
    person("Genentech, Inc.", role = c("fnd"), comment = "2014 - 2018"))
Maintainer: Russell Bainer <russ.bainer@gmail.com>
Description: Set of tools for evaluating pooled high-throughput
        screening experiments, typically employing CRISPR/Cas9 or shRNA
        expression cassettes. Contains methods for interrogating
        library and cassette behavior within an experiment, identifying
        differentially abundant cassettes, aggregating signals to
        identify candidate targets for empirical validation, hypothesis
        testing, and comprehensive reporting. Version 2.0 extends these
        applications to include a variety of tools for contextualizing
        and integrating signals across many experiments, incorporates
        extended signal enrichment methodologies via the "sparrow"
        package, and streamlines many formal requirements to aid in
        interpretablity.
License: Artistic-2.0
Imports: Biobase, limma, ggplot2, SummarizedExperiment, grid,
        rmarkdown, grDevices, graphics, methods, ComplexHeatmap, stats,
        utils, parallel, MatrixGenerics, methods
Suggests: edgeR, knitr, AnnotationDbi, org.Mm.eg.db, org.Hs.eg.db,
        BiocGenerics, markdown, RUnit, sparrow, msigdbr, fgsea
RoxygenNote: 7.3.3
VignetteBuilder: knitr
Encoding: UTF-8
biocViews: ImmunoOncology, CRISPR, PooledScreens, ExperimentalDesign,
        BiomedicalInformatics, CellBiology, FunctionalGenomics,
        Pharmacogenomics, Pharmacogenetics, SystemsBiology,
        DifferentialExpression, GeneSetEnrichment, Genetics,
        MultipleComparison, Normalization, Preprocessing,
        QualityControl, RNASeq, Regression, Software, Visualization
NeedsCompilation: no
Depends: R (>= 4.1)
git_url: https://git.bioconductor.org/packages/gCrisprTools
git_branch: RELEASE_3_14
git_last_commit: 4783d8f
git_last_commit_date: 2021-10-26
Packaged: 2026-07-03 21:31:11 UTC; root
Config/pak/sysreqs: cmake make libpng-dev libuv1-dev perl zlib1g-dev
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-04-28 12:44:09 UTC
RemoteUrl: https://github.com/bioc/gCrisprTools
RemoteRef: HEAD
RemoteSha: 707b2d5d50dfdb9fa5c85f92d9e7f367472a1c72