skills/bioskills/bio-genome-engineering-off-target-prediction/scripts/off_target_analysis.py

• prepare_cas_offinder_input · function · L19-L36 — def prepare_cas_offinder_input(guides, genome_dir, pam='NRG', guide_len=20, max_mismatches=4, dna_bulge=0, rna_bulge=0)
• parse_cas_offinder_output · function · L39-L51 — def parse_cas_offinder_output(filepath)
• load_cfd_tables · function · L54-L59 — def load_cfd_tables(mismatch_pkl=CFD_MISMATCH_PKL, pam_pkl=CFD_PAM_PKL)
• cfd_score · function · L62-L74 — def cfd_score(guide, off_protospacer, off_pam, mismatch_table, pam_table)
• aggregate_specificity · function · L77-L84 — def aggregate_specificity(cfd_scores)