######### odgi overlap #########
Find the paths touched by given input paths.
odgi overlap [-i, --input=FILE] [OPTION]…
The odgi overlap command finds the paths touched by the input paths.
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!
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!
-s, --subset-paths=FILE
Perform the search considering only the paths specified in the FILE; the file must contain one path name per line and a subset of all paths can be specified. When searching the overlaps, only these paths will be considered.
Perform the search considering only the paths specified in the FILE; the file must contain one path name per line and a subset of all paths can be specified. When searching the overlaps, only these paths will be considered.
-r, --path=STRING
Perform the search of the given path STRING in the graph.
Perform the search of the given path STRING in the graph.
-R, --paths=FILE
Report the search results only for the paths listed in FILE.
Report the search results only for the paths listed in FILE.
-b, --bed-input=FILE
A BED file of ranges in paths in the graph.
A BED file of ranges in paths in the graph.
-t, --threads=N
Number of threads to use for parallel operations.
Number of threads to use for parallel operations.
-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 overlap.
Print a help message for odgi overlap.