verkkofillet.pl.completePlot

verkkofillet.pl.completePlot(obj, width=6, height=4, save=True, figName=None, force=False)

Generates a bar plot showing contig completeness grouped by reference chromosome and haplotype. The completeness of each chromosome is calculated by comparing it to the reference length. A completeness value greater than 100 indicates that the contig length exceeds the original reference length.

Parameters:

obj – An object that contains a .stats attribute, which should be a pandas DataFrame with the following columns: - ref_chr (str): Reference chromosome identifier. - hap (str): Haplotype information. - contig_len (int): Length of the contigs.