Galaxy |

Repository revision

Revision: 0:ad7a60726fc3

Repository 'stacks2_shortreads'

Clone this repository: hg clone https://toolshed.g2.bx.psu.edu/repos/iuc/stacks2_shortreads

Stacks2: process shortreads tool metadata

Miscellaneous

Name: Stacks2: process shortreads

Description: fast cleaning of randomly sheared genomic or transcriptomic data

Id: stacks2_shortreads

Guid: toolshed.g2.bx.psu.edu/repos/iuc/stacks2_shortreads/stacks2_shortreads/2.4+galaxy0

Version: 2.4+galaxy0

Version command string: process_radtags -h |& grep process_radtags | head -n 1 | cut -d" " -f 2

Display in tool panel: True

Version lineage of this tool (guids ordered most recent to oldest)

toolshed.g2.bx.psu.edu/repos/iuc/stacks2_shortreads/stacks2_shortreads/2.4+galaxy1

toolshed.g2.bx.psu.edu/repos/iuc/stacks2_shortreads/stacks2_shortreads/2.4+galaxy0 (this tool)

stacks2_shortreads

Requirements (dependencies defined in the <requirements> tag set)

Requirements:

name

version

type

stacks

2.4

package

Functional tests

name

inputs

outputs

required files

Test-1

input_type|fqinputs: procrad/R1.fq
barcode: procrad/barcodes
input_type|input_type_select: single
input_type|barcode_encoding: --inline_null

attributes: name

procrad/R1.fq
procrad/barcodes
name

Test-2

capture: True
input_type|fqinputs: list:paired collection
input_type|input_type_select: paired
outype: gzfastq
barcode: procrad/barcodes
options_advanced|no_read_trimming: True
options_advanced|mate_pair: True
options_advanced|no_overhang: True
input_type|barcode_encoding: --inline_null

attributes: name

procrad/R1.fq
procrad/R2.fq
procrad/barcodes
name