Man pages for rmauntz/Larson_cfRNA_DarkChannelBiomarkers
A comprehensive characterization of the cell-free transcriptome reveals tissue- and subtype-specific biomarkers for cancer detection
| cellfreetranscriptome | A comprehensive characterization of the cell-free... |
| compute_TSS | Calculate tissue specificity score (TSS) |
| convert_gene_id | Convert the gene_id to gene_symbols |
| count_normalization | RNA-seq reads normalization using size factor |
| edger_two_group_de_te | Find differentiated expressed genes in two classes of RNA-seq... |
| genetable_to_matrix | Convert a gene expression data table into a caret-friendly... |
| get_darkness_index | Get gene darkness index from pilot healthy |
| get_rpm | Normalize the raw count data by size factor |
| gg_color_hue | Create a standard hue of colors for ggplot2 |
| matrix_to_genetable | Convert a caret-friendly matrix into a gene expression data... |
| normalize_matrix | Normalize reference matrix for tissue deconvolution |
| set_sig_level | Translate p-values from significance testing to astericks |
| summarise_rpms | Summarises gene-wise RPMs across a vector of samples |
| tissueDeconResidual | Estimates tissue deconvolution using quadprog |
| wilcoxon_test | Non-parametric Wilcoxon significance test between groups |
