epiout.main
Module Contents
Functions
|
|
|
|
|
|
|
|
List available tissues, cell lines, primary or differentiated cells. |
- epiout.main.cli_epicount(bed, alignments, output_prefix, cores=- 1, mapq=10, min_count=100, min_percent_sample=0.5, subset_chrom=False, file_format='parquet')
- epiout.main.cli_epiout(count_table, output_prefix, confounders=None, bottleneck_size=None, cores=1)
- epiout.main.cli_epiannot(bed, config, output_prefix, gtf=None, chrom_sizes=None, counts=None, gene_types='protein_coding', hic_bin_vicinity=200, hic_normalization='NONE', hic_binsize=5000, hic_min_read=10)
- epiout.main.cli_epiannot_create(tissue, output_dir, tf=False, hic=False, ccres=False)
- epiout.main.cli_epiannot_list()
List available tissues, cell lines, primary or differentiated cells.