skills/bioskills/bio-liquid-biopsy-cfdna-preprocessing/scripts/preprocess_cfdna.py

• _run · function · L17-L18 — def _run(cmd)
• preprocess_cfdna · function · L21-L73 — def preprocess_cfdna(input_bam, output_bam, reference, read_structure='6M11S+T', duplex=False, threads=8)
• insert_size_qc · function · L76-L94 — def insert_size_qc(bam_path, max_size=600)