DOI: 10.18129/B9.bioc.MAGeCKFlute    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see MAGeCKFlute.

Integrative analysis pipeline for pooled CRISPR functional genetic screens

Bioconductor version: 3.8

MAGeCKFlute is designed to surporting downstream analysis, utilizing the gene summary data provided through MAGeCK or MAGeCK-VISPR. Quality control, normalization, and screen hit identification for CRISPR screen data are performed in pipeline. Identified hits within the pipeline are categorized based on experimental design, and are subsequently interpreted by functional enrichment analysis.

Author: Wubing Zhang, Feizhen Wu, Binbin Wang

Maintainer: Wubing Zhang<Watson5bZhang at>

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biocViews BatchEffect, CRISPR, FunctionalGenomics, GeneSetEnrichment, ImmunoOncology, Normalization, Pathways, QualityControl, Software, Visualization
Version 1.2.3
In Bioconductor since BioC 3.7 (R-3.5) (1 year)
License GPL (>=3)
Depends R (>= 3.5), ggplot2, stats, grDevices, utils, pathview, gridExtra
Imports ggExtra, ggsci, ggrepel, clusterProfiler, png, data.table, pheatmap, sva, DOSE, biomaRt, grid, bladderbatch
Suggests knitr, rmarkdown, BiocStyle,
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