This site is a development preview. As such the content and styling may not be final and is subject to change before going into production. To see more information about the redesign click here.

Menu

Documentation:

R / CRAN packages and documentation

Support

Please read the posting guide. Post questions about Bioconductor to one of the following locations:

gscreend

This is the development version of gscreend; for the stable release version, see gscreend.

Analysis of pooled genetic screens

Bioconductor version: Development (3.18)

Package for the analysis of pooled genetic screens (e.g. CRISPR-KO). The analysis of such screens is based on the comparison of gRNA abundances before and after a cell proliferation phase. The gscreend packages takes gRNA counts as input and allows detection of genes whose knockout decreases or increases cell proliferation.

Author: Katharina Imkeller [cre, aut], Wolfgang Huber [aut]

Maintainer: Katharina Imkeller <k.imkeller at dkfz.de>

Citation (from within R, enter citation("gscreend")):

Installation

To install this package, start R (version "4.3") and enter: 

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("gscreend")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

Reference Manual PDF

Details

biocViews CRISPR, PooledScreens, Software, StatisticalMethod
Version 1.15.0
In Bioconductor since BioC 3.10 (R-3.6) (4 years)
License GPL-3
Depends R (>= 3.6)
Imports SummarizedExperiment, nloptr, fGarch, methods, BiocParallel, graphics
Linking To
Suggests knitr, testthat, rmarkdown
System Requirements
Enhances
URL https://github.com/imkeller/gscreend
Bug Reports https://github.com/imkeller/gscreend/issues
See More
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package
Windows Binary gscreend_1.15.0.zip
macOS Binary (x86_64) gscreend_1.15.0.tgz
macOS Binary (arm64) gscreend_1.15.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/gscreend
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/gscreend
Bioc Package Browser https://code.bioconductor.org/browse/gscreend/
Package Short Url https://bioconductor.org/packages/gscreend/
Package Downloads Report Download Stats