DOI: 10.18129/B9.bioc.MAGeCKFlute    

Integrative analysis pipeline for pooled CRISPR functional genetic screens

Bioconductor version: Release (3.10)

MAGeCKFlute is designed for analyzing CRISPR screenings. It takes gene summary file returned by MAGeCK, as input, and surports quality control, normalization, and screen hit identification in the CRISPR screen. Furthermore, for identified hits, customized functional enrichment analysis will be done on biological pathways, protein complex and other molecular customized signatures.

Author: Binbin Wang, Wubing Zhang, Feizhen Wu, Wei Li & X. Shirley Liu

Maintainer: Wubing Zhang<Watson5bZhang at>

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HTML R Script MAGeCKFlute.Rmd
HTML R Script MAGeCKFlute_enrichment.Rmd
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biocViews BatchEffect, CRISPR, FunctionalGenomics, GeneSetEnrichment, GeneTarget, KEGG, Normalization, Pathways, PooledScreens, QualityControl, Software, Visualization
Version 1.6.4
In Bioconductor since BioC 3.7 (R-3.5) (2 years)
License GPL (>=3)
Depends R (>= 3.5)
Imports clusterProfiler, DOSE, enrichplot, gridExtra, biomaRt, sva, ggsci, ggplot2, ggrepel, ggpubr, data.table, pheatmap, png, grDevices, grid, stats, utils, dendextend, scales, Biobase, msigdbr, KEGGgraph, KEGGREST, graph, pathview, XML
Suggests knitr, testthat
Depends On Me
Imports Me SpidermiR
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Links To Me
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