Galaxy |

Repository revision

Revision: 1:cfd6e76541ff

Repository 'sambamba_flagstat'

Clone this repository: hg clone https://toolshed.g2.bx.psu.edu/repos/bgruening/sambamba_flagstat

Sambamba flagstat tool metadata

Miscellaneous

Name: Sambamba flagstat

Description: Retrieving flag statistics from BAM file

Id: sambamba_flagstat

Guid: toolshed.g2.bx.psu.edu/repos/bgruening/sambamba_flagstat/sambamba_flagstat/1.0.1+galaxy2

Version: 1.0.1+galaxy2

Version command string: None

Display in tool panel: True

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

toolshed.g2.bx.psu.edu/repos/bgruening/sambamba_flagstat/sambamba_flagstat/1.0.1+galaxy2 (this tool)

toolshed.g2.bx.psu.edu/repos/bgruening/sambamba_flagstat/sambamba_flagstat/1.0.1+galaxy1

sambamba_flagstat

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

Requirements:

name

version

type

sambamba

1.0.1

package

Additional information about this tool

Command:

sambamba flagstat 
        '${input_bam}'
        --nthreads \${GALAXY_SLOTS:-4}
        > $output

Interpreter: None

Forces a history refresh: False

Functional tests

name

inputs

outputs

required files

Test-1

input_bam: 1.bam

name: value

1.bam
value