crested.tl.modisco.process_patterns#
- crested.tl.modisco.process_patterns(matched_files, sim_threshold=3.0, trim_ic_threshold=0.1, discard_ic_threshold=0.1, verbose=False)#
Process genomic patterns from matched HDF5 files, trim based on information content, and match to known patterns.
- Parameters:
matched_files (
dict[str,str|list[str] |None]) – dictionary with class names as keys and paths to HDF5 files as values.sim_threshold (
float(default:3.0)) – Similarity threshold for matching patterns (-log10(pval), pval obtained through TOMTOM matching from tangermeme)trim_ic_threshold (
float(default:0.1)) – Information content threshold for trimming patterns.discard_ic_threshold (
float(default:0.1)) – Information content threshold for discarding patterns.verbose (
bool(default:False)) – Flag to enable verbose output.