bfast_db

Generate db index files for aligning reads with bfast

Commands

clean
Remove all job data, not the Moa job itself
run
run bfast fasta2brg and index commands

Filesets

fa_input
fasta input file

Parameters

algorithm_colour_space

true -> colour space, false -> NT space

type: boolean
default: False
optional: True
depth

The depth of the splitting(d). The index will be split into 4^d parts.

type: integer
default: 0
optional: True
extra_params

Any extra parameters

type: string
default: ``
optional: True
hash_width

The hash width for the index (recommended from manual = 14)

type: integer
default: {}
optional: False
index_num

Specifies this is the ith index you are creating

type: integer
default: 1
optional: True
mask

The mask or spaced seed to use.

type: string
default: {}
optional: False
print_params

print program parameters

type: boolean
default: False
optional: True
thread_num

Specifies the number of threads to use

type: integer
default: 1
optional: True
timing_information

specifies output timing information

type: boolean
default: True
optional: True
usage_summary

Display usage summary (help)

type: boolean
default: False
optional: True

miscellaneous

Backend
ruff
Author
Yogini Idnani, Mark Fiers
Creation date
Wed Feb 15 10:06:48 2011
Modification date
unknown