Package: gscreend 1.19.0

Katharina Imkeller

gscreend: Analysis of pooled genetic screens

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.

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

gscreend_1.19.0.tar.gz
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gscreend_1.19.0.tgz(r-4.4-any)gscreend_1.19.0.tgz(r-4.3-any)
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gscreend.pdf |gscreend.html✨
gscreend/json (API)
NEWS

# Install 'gscreend' in R:
install.packages('gscreend', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/imkeller/gscreend/issues

On BioConductor:gscreend-1.19.0(bioc 3.20)gscreend-1.18.0(bioc 3.19)

bioconductor-package

7 exports 0.71 score 51 dependencies 2 mentions

Last updated 2 months agofrom:1f146b3aad

Exports:createPoolScreenExpGeneDataplotModelParametersplotReplicateCorrelationResultsTableRunGscreendsgRNAData

Dependencies:abindaskpassBHBiobaseBiocGenericsBiocParallelcodetoolscpp11crayoncurlcvarDelayedArrayfastICAfBasicsfGarchformatRfutile.loggerfutile.optionsgbutilsGenomeInfoDbGenomeInfoDbDataGenomicRangesgsshttrIRangesjsonlitelambda.rlatticeMASSMatrixMatrixGenericsmatrixStatsmimenloptropensslR6rbibutilsRdpackS4ArraysS4VectorssnowSparseArrayspatialstabledistSummarizedExperimentsystimeDatetimeSeriesUCSC.utilsXVectorzlibbioc

Vignette illustrating the usage of gscreend on simulated data

Katharina Imkeller

Rendered fromgscreend_simulated_data.Rmdusingknitr::rmarkdownon Jun 25 2024.

Last update: 2021-08-09
Started: 2019-07-16