Description

Calculates a coverage histogram from a GFA file and constructs a growth table from this as either a TSV or HTML file

Input

Name
Description
Pattern

0 ()

1 ()

bed_subset (file)

Optional 1-column TXT-list of paths or 3-/12-column BED file of path coordinates for getting counts by subsetting the graph

*.{txt, bed}

bed_exclude (file)

Optional 1-column TXT-list of paths or 3-/12-column BED file of path coordinates for excluding bp/nodes/edges that intersect these paths

*.{txt, bed}

tsv_groupby (file)

Optional 2-column TSV file containing path to group mapping according to which counts from different paths get merged

*.{txt, bed}

Output

Name
Description
Pattern

0 ()

0 ()

Tools

panacus Documentation

panacus is a tool for computing counting statistics for GFA files

License: MIT
Authors