ALLCools.count_matrix.dataset
Contents
ALLCools.count_matrix.dataset
¶
Module Contents¶
- count_single_region_set(allc_table, region_config, obs_dim, region_dim)[source]¶
Get cell-by-region-by-mc_types count matrix, save to zarr
- count_single_zarr(allc_table, region_config, obs_dim, region_dim, output_path, obs_dim_dtype, count_dtype='uint32')[source]¶
process single region set and its quantifiers
- generate_dataset(allc_table, output_path, regions, quantifiers, chrom_size_path, obs_dim='cell', cpu=1, chunk_size=None)[source]¶
{generate_dataset_doc}
- Parameters
allc_table – {allc_table_doc}
output_path – Output path of the MCDS dataset
regions – {regions_doc}
quantifiers – {quantifiers_doc}
chrom_size_path – {chrom_size_path_doc}
obs_dim – {obs_dim_doc}
cpu – {cpu_basic_doc}
chunk_size – {chunk_size_doc}
- Returns
- Return type
output_path