ALLCools.count_matrix.mcad
Contents
ALLCools.count_matrix.mcad
¶
Module Contents¶
- _count_single_allc(allc_path, bed_path, mc_pattern, output_dir, cutoff=0.9, reverse_value=False)[source]¶
- generate_mcad(allc_table, bed_path, output_prefix, mc_context, cpu=1, cleanup=True, cutoff=0.9, reverse_value=False)[source]¶
- Parameters
allc_table – {allc_table_doc}
bed_path – {bed_path_doc}
cpu – {cpu_doc}
output_prefix – Output prefix of the MCAD, a suffix “.mcad” will be added.
mc_context – {mc_context_doc}
cleanup – Whether remove temp files or not
cutoff – Values smaller than cutoff will be stored as 0, which reduces the file size
reverse_value – If true, use cdf instead of sf to make hyper-methylation events having higher values