combine_predict_grid {musicatk} | R Documentation |
Combine prediction grid list into a result object. Exposure values are zero for samples in an annotation where that signature was not predicted
combine_predict_grid(grid_list, musica, table_name, signature_res)
grid_list |
A list of result objects from the prediction grid to combine into a single result |
musica |
A |
table_name |
Table name used for prediction |
signature_res |
Signatures to automatically subset from for prediction |
A result object combining all samples and signatures from a prediction grid. Samples have zero exposure value for signatures not found in that annotation type.
data(musica_annot) data(cosmic_v2_sigs) grid <- auto_predict_grid(musica_annot, "SBS96", cosmic_v2_sigs, "lda", "Tumor_Subtypes", combine_res = FALSE) combined <- combine_predict_grid(grid, musica_annot, "SBS96", cosmic_v2_sigs) plot_exposures(combined, group_by = "annotation", annotation="Tumor_Subtypes")