odgi flatten¶
generate linearization of the graph
SYNOPSIS¶
odgi flatten [-i, –idx=FILE] [OPTION]…
DESCRIPTION¶
The odgi flatten(1) command projects the graph sequence and paths into FASTA and BED.
OPTIONS¶
Graph Files IO¶
-i, –idx=FILE
File containing the succinct variation graph to flatten. The file name
usually ends with .og.
Output Options¶
-f, –fasta=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].
-b, –bed=FILE
Write the mapping between graph paths and the linearized FASTA
sequence in BED format to FILE.
Program Information¶
-h, –help
Print a help message for odgi flatten.