kangax
use kangax to create the suffix array lookup database for the reference genome
Commands
- clean
- Remove all job data, not the Moa job itself, note that this must be implemented by the template.
- run
- run kangax
Filesets
- input_fasta
- Fasta input file
- output_log
output log file
type: map
source: input_fasta
category: output
optional: {}
pattern: ./*.log.txt
- output_sfx
output suffix array lookup
type: map
source: input_fasta
category: output
optional: {}
pattern: ./*.sfx
Parameters
- block_seq_len
generated suffix blocks to hold at most this length (MB) concatenated sequences
type: integer
default: 3300
optional: True
- color_space
generate for colorspace (SOLiD)
type: boolean
default: False
optional: True
- extra_params
any extra parameters
type: string
default: ``
optional: True
- help
print this help and exit
type: boolean
default: False
optional: True
- reference_species
reference species
type: string
default: ``
optional: False
- target_dep
generate target file only if missing or older than any independent source files
type: boolean
default: False
optional: True
- version
print version information and exit
type: boolean
default: False
optional: True
miscellaneous
- Backend
- ruff
- Author
- Mark Fiers, Yogini Idnani
- Creation date
- Wed Nov 10 07:56:48 2010
- Modification date
- unknown