BarView                 Bar plot
BatchRemove             Batch effect removal
ConsistencyView         Visualize the estimate cell cycle compared to
                        control.
CutoffCalling           Quantile of normal distribution.
DensityDiffView         Density plot
DensityView             Density plot for gene beta scores in Control
                        and Treatment
EnrichAB                Enrichment analysis for Positive and Negative
                        selection genes
EnrichAnalyzer          Enrichment analysis
EnrichSquare            Enrichment analysis for selected treatment
                        related genes
EnrichedFilter          Simplify the enrichment results based on
                        Jaccard index
EnrichedGeneView        Visualize enriched pathways and genes in those
                        pathways
EnrichedView            View enriched terms
FluteMLE                Downstream analysis based on MAGeCK-MLE result
FluteRRA                Downstream analysis based on MAGeCK-RRA result
HeatmapView             Draw heatmap
IdentBarView            Identical bar plot
IncorporateDepmap       Incorporate Depmap screen into analysis
KeggPathwayView         Kegg pathway view
MAView                  MAplot of gene beta scores
MapRatesView            View mapping ratio
NormalizeBeta           Normalize gene beta scores
OmitCommonEssential     Omit common essential genes based on depmap
                        data
RankView                View the rank of gene points
ReadBeta                Read gene beta scores
ReadGMT                 ReadGMT
ReadRRA                 Read gene summary file in MAGeCK-RRA results
ReadsgRRA               Read sgRNA summary in MAGeCK-RRA results
ResembleDepmap          Compute the similarity between customized
                        CRISPR screen with Depmap screens
ScatterView             Scatter plot
Selector                Select signatures from candidate list
                        (according to the consistence in most samples).
SquareView              Scatter plot of 9-Square
TransGeneID             Gene ID conversion between ENTREZID and SYMBOL
ViolinView              Violin plot
VolcanoView             Volcano View
arrangePathview         Kegg pathway view and arrange grobs on page
countsummary            Count summary data generated by running MAGeCK
                        count
enrich.GSE              Gene set enrichment analysis
enrich.HGT              Do enrichment analysis using Hypergeometric
                        test
enrich.ORT              Do enrichment analysis using
                        over-representation test
getCols                 Map values to colors
getGeneAnn              Retrieve gene annotations from the NCBI, HNSC,
                        and Uniprot databases.
getOrg                  Get the kegg code of specific mammalia
                        organism.
getOrtAnn               Retreive reference orthologs annotation.
gsGetter                Extract pathway annotation from GMT file.
hclustView              Cluster and view cluster tree
mle.gene_summary        Gene summary table in MAGeCK MLE results
noEnrichPlot            Blank figure
normalize.loess         normalize.loess
retrieve_gs             Update genesets from source database
rra.gene_summary        Gene summary data generated by running MAGeCK
                        RRA
rra.sgrna_summary       sgRNA summary data generated by running MAGeCK
                        RRA
sgRankView              View sgRNA rank.
