gmap¶
Gmap
Run GMAP on an set of input files (query) vs a database index.
Commands¶
- clean
- Remove all job data, not the Moa job itself, note that this must be implemented by the template.
- run
- no help defined
Filesets¶
align
type: mapsource: inputcategory: outputoptional: {}pattern: ./align/*.align
genepred
type: mapsource: inputcategory: outputoptional: {}pattern: ./genepred/*.genepred
gff
type: mapsource: inputcategory: outputoptional: {}pattern: ./gff/*.gff
gff_invert
type: mapsource: inputcategory: outputoptional: {}pattern: ./gff/*.invert.gff
- input
- Sequences to map
raw
type: mapsource: inputcategory: outputoptional: {}pattern: ./raw/*.raw
Parameters¶
- db
Gmap db
type: filedefault: ``optional: False- extra_parameters
extra parameters to feed to gmap
type: stringdefault: ``optional: True- gff_source
Source field to use in the output GFF
type: stringdefault: gmapoptional: True- invert_gff
Invert the GFF (T/F)
type: setdefault: Toptional: True
miscellaneous¶
- Backend
- ruff
- Author
- Mark Fiers
- Creation date
- Wed Nov 10 07:56:48 2010
- Modification date
- Wed Nov 10 07:56:48 2010