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To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("gCrisprTools")
In most cases, you don't need to download the package archive at all.
gCrisprTools
|
This package is for version 3.4 of Bioconductor; for the stable, up-to-date release version, see gCrisprTools.
Suite of Functions for Pooled Crispr Screen QC and Analysis
Bioconductor version: 3.4
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.
Author: Russell Bainer, Dariusz Ratman, Pete Haverty, Steve Lianoglou
Maintainer: Russell Bainer <bainer.russell at gene.com>
Citation (from within R,
enter citation("gCrisprTools")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("gCrisprTools")
Documentation
| HTML | R Script | gCrisprTools_Vignette |
| HTML | R Script | gCrisprTools_Vignette |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | BiomedicalInformatics, CRISPR, CellBiology, DifferentialExpression, ExperimentalDesign, FunctionalGenomics, GeneSetEnrichment, Genetics, MultipleComparison, Normalization, Pharmacogenetics, Pharmacogenomics, PooledScreens, Preprocessing, QualityControl, RNASeq, Regression, Software, SystemsBiology, Visualization |
| Version | 1.0.0 |
| In Bioconductor since | BioC 3.4 (R-3.3) (0.5 years) |
| License | Artistic-2.0 |
| Depends | R (>= 3.3) |
| Imports | Biobase, limma, RobustRankAggreg, ggplot2, parallel, PANTHER.db, BiocParallel, rmarkdown, grDevices, graphics, stats, utils |
| LinkingTo | |
| Suggests | edgeR, knitr, grid, AnnotationDbi, org.Mm.eg.db, org.Hs.eg.db |
| SystemRequirements | |
| Enhances | |
| URL | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | gCrisprTools_1.0.0.tar.gz |
| Windows Binary | gCrisprTools_1.0.0.zip |
| Mac OS X 10.9 (Mavericks) | gCrisprTools_1.0.0.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/gCrisprTools/tree/release-3.4 |
| Package Short Url | http://bioconductor.org/packages/gCrisprTools/ |
| Package Downloads Report | Download Stats |
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