odgi squeeze

Squeezes multiple graphs in ODGI format into the same file in ODGI format.

SYNOPSIS

odgi squeeze [-f, --input-graphs=FILE] [-o, –out=FILE] [OPTION]…

DESCRIPTION

The odgi squeeze command merges multiple graphs into the same file.

OPTIONS

MANDATORY OPTIONS

-f, --input-graphs=FILE

Input file containing the list of graphs to squeeze into the same file. The file must contain one graph per line. It also accepts GFAv1 or GFAz (compressed GFA), but the on-the-fly conversion to the ODGI format requires additional time!

-o, --out=FILE

Store all the input graphs in this FILE. The file name usually ends with .og.

Squeeze Options

-s, --rank-suffix=STRING

Add the separator and the input file rank as suffix to the path names (to avoid path name collisions).

-O, --optimize

Compact the node ID space for each connected component before squeezing.

Threading

-t, --threads=N

Number of threads to use for parallel operations.

Processing Information

-P, --progress

Print information about the progress to stderr.

Program Information

-h, --help

Print a help message for odgi squeeze.