| RAGOUT(1) | User Commands | RAGOUT(1) |
NAME¶
ragout - Chromosome assembly with multiple references
SYNOPSIS¶
ragout [-h] [-o output_dir] [-s {sibelia,maf,hal}] [--refine] [--solid-scaffolds] [--overwrite] [--repeats] [--debug] [-t THREADS] [--version] recipe_file
OPTIONS¶
positional arguments:¶
- recipe_file
- path to recipe file
optional arguments:¶
- -h, --help
- show this help message and exit
- -o output_dir, --outdir output_dir
- output directory (default: ragout-out)
- -s {sibelia,maf,hal}, --synteny {sibelia,maf,hal}
- backend for synteny block decomposition (default: sibelia)
- --refine
- enable refinement with assembly graph (default: False)
- --solid-scaffolds
- do not break input sequences - disables chimera detection module (default: False)
- --overwrite
- overwrite results from the previous run (default: False)
- --repeats
- enable repeat resolution algorithm (default: False)
- --debug
- enable debug output (default: False)
- -t THREADS, --threads THREADS
- number of threads for synteny backend (default: 1)
- --version
- show program's version number and exit
AUTHOR¶
This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program.
| February 2019 | ragout 2.1.1 |