######### odgi flatten #########
Generate linearizations of a graph.
odgi flatten [-i, --idx=FILE] [OPTION]…
The odgi flatten command projects the graph sequence and paths into FASTA and BED.
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!
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!
-f, --fasta=FILE
Write the concatenated node sequences in FASTA format to FILE.
Write the concatenated node sequences in FASTA format to FILE.
-n, --name-seq=STRING
The name to use for the concatenated graph sequence. Default is the name of the input file which was specified via [-i, --idx=FILE].
The name to use for the concatenated graph sequence. Default is the name of the input file which was specified via [-i, --idx=FILE].
-b, --bed=FILE
Write the mapping between graph paths and the linearized FASTA sequence in BED format to FILE.
Write the mapping between graph paths and the linearized FASTA sequence in BED format to FILE.
-t, --threads=N
Number of threads to use (to embed the subpaths in parallel).
Number of threads to use (to embed the subpaths in parallel).
-P, --progress
Print information about the operations and the progress to stderr.
Print information about the operations and the progress to stderr.
-h, --help
Print a help message for odgi flatten.
Print a help message for odgi flatten.