odgi flip

Flip (reverse complement) paths to match the graph.

SYNOPSIS

odgi flip [-i, --input=FILE] [OPTION]…

DESCRIPTION

The odgi flip command flips paths around if they tend to be in the reverse complement orientation relative to the graph.

OPTIONS

MANDATORY OPTIONS

-i, --input=FILE

Load the succinct variation graph in ODGI format from this FILE. The file name usually ends with .og. It also accepts GFAv1, but the on-the-fly conversion to the ODGI format requires additional time!

-o, --out=FILE

Write the graph with flipped paths to .og.

Threading

-t, --threads=N

Number of threads to use for parallel operations.

Processing Information

-P, --progress

Print information about the operations and the progress to stderr.

Program Information

-h, --help

Print a help message for odgi flip.