Sample_disease_gene_set
                        This is data to be included in package
Sample_summary_statistics_table
                        This is data to be included in package
Sample_summary_statistics_table1
                        This is data to be included in package
c2BroadSets             This is data to be included in package
cal.pathway.scores      calculate pathway scores
calc.cfb                Calculate CFB
count_table             This is data to be included in package
dlPathwaysDB            DL Pathways DB
get.cpm.colors          Get CPM Colors
get.cutoff.df           Create ggplot object for number of
                        differntially expressed genes with different
                        FDR and fold change cutoff.
get.cutoff.ggplot       Create ggplot object for number of
                        differntially expressed genes with different
                        FDR and fold change cutoff.
make.cutoff.plotly      Create plotly object for number of DE genes at
                        different cutoff combinations
multiPlot               Multi Plot
nullreturn              Null Return
plot_cutoff             Check number of DE genes at different cutoff
                        combinations
plot_cutoff_single      Create plotly object for number of DE genes at
                        different cutoff combinations
plot_gene               Plot gene expression
plot_heatmap.cfb        Plot a CFB Heatmap
plot_heatmap.cpm        Plot a CPM Heatmap
plot_heatmap.expr       Plot Heatmap From Raw CPM
plot_pathway            Pathway analysis and visualization
plot_qq                 Plot qqplot
plot_volcano            Plot volcanoplot
prettyGraphs            Pretty Graphs
produce.cutoff.message
                        Create a message about fold change and pvalues
                        used to produce the plot.
produce.cutoff.warning
                        Create a warning about pvalue or FDR minimum
                        value
reformat.ensembl        Reformat Ensembl GeneIDs
sample_annotation       This is data to be included in package
sample_count_cpm        This is data to be included in package
secondCutoffErr         Second Cutoff Error
transform.geneid        Transform GeneIDs
validate.FC             Validate Foldchange
validate.annot          Validate Annotation Table
validate.baseline       Validate Baseline Values
validate.col.types      Check Summary Statistics Required Column Types
validate.comp.names     Validate Comp Names
validate.data           Validate Data Input
validate.data.annot     Validate Data in the Context of Annotation
validate.flag           Validate Flag Value Is Valid
validate.genes.present
                        Validate genes present
validate.geneset        Validate Geneset
validate.numeric        Validate Numeric Column
validate.pathways.db    Validate Pathways DB
validate.pval.range     Validate P-value Range
validate.pvalflag       Validate pval flag
validate.pvals          Validate Pvalues
validate.single.table.isnotlist
                        Validate Single Table is not list
validate.stats          Validate Summary Statistics File
validate.stats.cols     Check Summary Statistics Required Columns
wpA2020                 This is data to be included in package
