Mutational Signature Analysis Tools

Documentation for package ‘mSigTools’ version 1.0.7

find_best_reconstruction_QP	Find "best" reconstruction of a target signature or spectrum from a set of signatures.
match_two_sig_sets	Find an optimal matching between two sets of signatures subject to a maximum distance.
optimize_exposure_QP	Quadratic programming optimization of signature activities
plot_exposure	Plot exposures in multiple plots, with each plot showing exposures for a manageable number of samples.
plot_exposure_to_pdf	Plot exposures in multiple plots to a single PDF file, with each plot showing exposures for a manageable number of samples.
read_exposure	Read an exposure matrix from a file.
sig_dist_matrix	Compute a matrix of distances / similarities between two sets of signatures.
sort_exposure	Sort columns of an exposure matrix based on the number of mutations in each sample (column).
TP_FP_FN_avg_sim	Find best matches (by cosine similarity) of a set of mutational signatures to a set of reference mutational signatures.
write_exposure	Write an exposure matrix to a file.