orthomcl¶

Run OrthoMCL

Execute one command, No in or output files are tracked by Moa.

Commands¶

db: Db name

type: string

default: {}

optional: False
eval: Evalue cutoff for blast to use

type: string

default: 1e-5

optional: True
group_prefix: OrthoMCL prefix for group names

type: string

default: g_

optional: True
host: Db Host

type: localhost

default: {}

optional: True
input_dir: Input directory with compliant (read the manual) fasta files

type: string

default: {}

optional: False
login: Db username

type: string

default: None

optional: False
mcl_i: mcl -i value

type: float

default: 1.5

optional: True
num_threads: Number of threads to use

type: integer

default: 4

optional: True
pass: Db password

type: string

default: None

optional: False
port: Db port

type: integer

default: 3306

optional: True
prefix: OrthoMCL prefix for the database tables

type: string

default: ortho

optional: True
vendor: Db vendor

type: string

default: mysql

optional: True