T47D                    The T47D cell line data of RNA-seq experiment
                        GSE89888
T47D_diff_testing       Differential expression results corresponding
                        to the T47D data set.
all_numeric             for a vector x, check if all non-NA elements of
                        x can be converted to numeric
filter_genes            Filter genes with low counts
get_gene_id             Get all gene IDs in a DESeqDataSet for a given
                        gene name.
make_dds                Make DESeqDataSet from counts matrix and
                        metadata
mean_sd_plot            Create a mean-sd plot Make a scatterplot that
                        shows for each gene its standard deviation
                        versus mean.
plot_biotypes           Plot number of counts per sample and biotype
plot_chromosome         Plot gene expression along a chromosome
plot_gene               Plot a gene
plot_gene_detection     Plot number of detected genes for each sample
plot_library_complexity
                        Plot the library complexity
plot_loadings           Plot loadings of a principal component
plot_ma                 MA-plot of a differential testing result
plot_pca                Plot results of a principal component analysis
plot_pca_scatters       Plot matrix of PCA scatter plots
plot_sample_MAs         MA plots of samples
plot_sample_clustering
                        Plot clustering of samples in a distance
                        heatmap
plot_total_counts       Plot total counts per sample
plot_within_level_sample_MAs
                        Plot correlations of samples within a level of
                        a group
save_plots_to_pdf       Save list of plots to PDF
