verkkofillet.pl.n50Plot

Contents

verkkofillet.pl.n50Plot#

verkkofillet.pl.n50Plot(obj, width=8, height=5, save=True, figName=None, nprint=None, colName='ref_chr', dpi=300, force=False)[source]#

Generates a line plot showing the distribution of contig lengths. The N50 value is indicated by a red dashed line.

Parameters:

  • obj – An object that contains a .stats attribute, which should be a pandas DataFrame.

  • width – Width of the plot. Default is 8.

  • height – Height of the plot. Default is 5.

  • save – If True, the plot is saved as a PDF file. Default is True.

  • figName – Name of the saved plot. Default is None. If None, the plot is saved as “figs/N50.pdf”. You can set the path and format to save the plot. For example, “figs/N50.pdf”.

  • nprint – Number of contigs to display. Default is None. If None, all contigs are displayed.

  • colName – Column name to group by in obj.stats. Default is “ref_chr”.

  • dpi – Resolution of the saved plot. Default is 300.

Contents