Galaxy |

Repository revision

Revision: 1:eb66d7a04bf8

Repository 'crossmap_region'

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

CrossMap region tool metadata

Miscellaneous

Name: CrossMap region

Description: Convert genome coordinates or annotation files between genome assemblies

Id: crossmap_region

Guid: toolshed.g2.bx.psu.edu/repos/iuc/crossmap_region/crossmap_region/0.6.1+galaxy0

Version: 0.6.1+galaxy0

Version command string: CrossMap.py 2>&1 | head -n 1 | grep -E --only-matching 'CrossMap.*'

Display in tool panel: True

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

toolshed.g2.bx.psu.edu/repos/iuc/crossmap_region/crossmap_region/0.6.1+galaxy0 (this tool)

toolshed.g2.bx.psu.edu/repos/iuc/crossmap_region/crossmap_region/0.5.2+galaxy0

crossmap_region

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

Requirements:

name

version

type

crossmap

0.6.1

package

Additional information about this tool

Command:

CrossMap.py region
    '${chain_source.input_chain}'
    '${input}'
    $output
    --chromid $chromid
    --ratio $ratio

Interpreter: None

Forces a history refresh: False

Functional tests

name

inputs

outputs

required files

Test-1

input: test_bed_01_input_a.bed
chain_source|input_chain: aToB.over.chain
chain_source|index_source: history

name: value

test_bed_01_input_a.bed
aToB.over.chain
value