SummarizedCounts        SummarizedCounts Object
calc_gene_gc            Calculate GC content of genes
calc_region_gc          Calculate GC content of genomic regions
correct_GC              Correct DNA contamination considering GC-bias
                        effect
correct_IR              Correct gene expression using a linear model
correct_global          Global correction for DNA contamination
correct_stranded        Correct for gDNA contamination in stranded
                        libraries
create_summarizedcounts
                        Create an object of SummarizedCounts
feature_counts_list     GC content and lengths of 2000 intergenic
                        regions
gene_GC                 GC content and lengths of 2000 human genes
get_region_stat         Calculate read distribution over different
                        types of genomic features
get_saf                 Generate a SAF file for genomic features
intergenic_GC           GC content and lengths of 2000 intergenic
                        regions
plot_assignment_stat    Visualize assignment statistics of
                        reads/fragments by featureCounts
plot_expr_distr         Visualize expression distribution
plot_gene_content       Check the percentage of genes with counts
                        greater than minimal CPM
plot_pca_heatmap        Check sample similarity and variation
plot_read_distr         Visualize read distribution among different
                        genomic regions
plot_sample_corr        Visualize sample correlation
salmon_quant            GC content and lengths of 2000 intergenic
                        regions
salmon_tximport         Import Salmon quantification output into R
style_BSgenome          Convert a BSgenome from the UCSC to the Ensembl
                        style
summarize_reads         Summarize reads for different genomic features
