Man pages for parklab/SigMA
Signature Multivariate Analysis
| assignment | Assigns a boolean based on a threshold on the likelihood or... |
| calc_llh | Calculates likelihood of the genome with respect to the... |
| cosine | calculates cosine similarity between the spectrum and a set... |
| decompose | Decomposes the mutational spectrum of a genome in terms of... |
| lite_df | produces a data.frame with fewer columns for easier use |
| make_matrix | Converts somatic mutation call files in a directory either in... |
| match_to_catalog | Calculates the compatibility of a list of genomes to an input... |
| plot_detailed | Generates a detailed plot per sample |
| plot_summary | Generates summary plot |
| plot_tribase_dist | plots the 96 dimensional mutational spectrum |
| predict_mva | This function uses the trained MVA, in particular gradient... |
| run | Runs SigMA: (1) calculates likelihood, cosine similarity,... |
