auto_subset_sigs {musicatk} | R Documentation |
Automatic filtering of inactive signatures
auto_subset_sigs( musica, table_name, signature_res, algorithm, min_exists = 0.05, proportion_samples = 0.25, rare_exposure = 0.4 )
musica |
A |
table_name |
Name of table used for posterior prediction (e.g. SBS96) |
signature_res |
Signatures to automatically subset from for prediction |
algorithm |
Algorithm to use for prediction. Choose from "lda_posterior", decompTumor2Sig, and deconstructSigs |
min_exists |
Threshold to consider a signature active in a sample |
proportion_samples |
Threshold of samples to consider a signature active in the cohort |
rare_exposure |
A sample will be considered active in the cohort if at least one sample has more than this threshold proportion |
A result object containing automatically subset signatures and corresponding sample weights