DOI: 10.18129/B9.bioc.MAGeCKFlute    

This is the development version of MAGeCKFlute; to use it, please install the devel version of Bioconductor.

Integrative analysis pipeline for pooled CRISPR functional genetic screens

Bioconductor version: Development (3.7)

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 CRISPR, DifferentialExpression, ExperimentalDesign, FunctionalGenomics, FunctionalPrediction, GeneExpression, GeneSetEnrichment, GeneTarget, GeneticVariability, GenomicVariation, GraphAndNetwork, KEGG, Metabolomics, Microarray, MultipleComparison, Normalization, Pathways, PooledScreens, Proteomics, QualityControl, RNASeq, Sequencing, Software, SystemsBiology, Visualization
Version 0.99.18
License GPL (>=3)
Depends R (>= 3.5), ggplot2, stats, grDevices, utils, pathview, gridExtra
Imports graphics, ggExtra, affy, reshape, ggsci, ggrepel, grid, Category, GOstats, png, clusterProfiler, Biobase, data.table, pathological, pheatmap, RColorBrewer, sva, colorspace, dendextend, scales
Suggests knitr, rmarkdown, BiocStyle,
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