gsMapper

GSMapper

Run the Roche GS Reference mapper

Commands

clean

Remove all job data, not the Moa job itself, note that this must be implemented by the template.

run

no help defined

Parameters

annotation

Gene annotation file in the UCSC GenePred format

type: file

default: ``

optional: True

min_overlap_ident

Minimum identity length in the assembly step

type: integer

default: 90

optional: True

min_overlap_len

Minimum overlap length in the assembly step

type: integer

default: 40

optional: True

name

Name identifying this mapping in the output gff

type: string

default: ``

optional: False

reference_fasta

A multifasta file with the reference sequence(s)with the library id.

type: file

default: ``

optional: True

sfffile

SFF files with reads to map against the reference sequences

type: file

default: ``

optional: True

miscellaneous

Backend

gnumake

Author

Mark Fiers

Creation date

Wed Nov 10 07:56:48 2010

Modification date

Wed Nov 10 07:56:48 2010