odgi unitig
Output unitigs of the graph.
SYNOPSIS
odgi unitig [-i, --idx=FILE] [OPTION]…
DESCRIPTION
The odgi unitig command can print all unitigs of a given odgi graph to standard output in FASTA format. Unitigs can also be emitted in a fixed sequence quality FASTQ format. Various parameters can refine the unitigs to print.
OPTIONS
MANDATORY OPTIONS
-i, --idx=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!
FASTQ Options
-f, --fake-fastq
Write the unitigs in FASTQ format to stdout with a fixed quality value of I.
Unitig Options
-t, --sample-to=N
Continue unitigs with a random walk in the graph so that they have at least the given N length.
-p, --sample-plus=N
Continue unitigs with a random walk in the graph by N past their natural end.
-l, --min-begin-node-length=N
Only begin unitigs collection from nodes which have at least length N.
Processing Information
-P, --progress
Print information about the operations and the progress to stderr.
Program Information
-h, --help
Print a help message for odgi extract.
Program Information
-h, --help
Print a help message for odgi unitig.