bowtie_se

Run BOWTIE 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

fq_input

fastq input files directory

output

Bam output file

type: map

source: fq_input

category: output

optional: {}

pattern: ./*.bam

Parameters

ebwt_base

The (basename of the) bowtie database to use.

type: string

default: {}

optional: False

extra_params

extra parameters to feed to bowtie

type: string

default: ``

optional: True

input_format

Format of the input files

type: set

default: fastq

optional: True

output_format

Format of the output file

type: set

default: bam

optional: True

miscellaneous

Backend

ruff

Author

Yogini Idnani, Mark Fiers

Creation date

Wed Nov 10 07:56:48 2010

Modification date

Wed Nov 10 07:56:48 2010