Galaxy |

Repository revision

Revision: 15:f64e7ca2efd2

Repository 'bcftools_query'

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

bcftools query tool metadata

Miscellaneous

Name: bcftools query

Description: Extracts fields from VCF/BCF file and prints them in user-defined format

Id: bcftools_query

Guid: toolshed.g2.bx.psu.edu/repos/iuc/bcftools_query/bcftools_query/1.10

Version: 1.10

Version command string: bcftools 2>&1 | grep 'Version:'

Display in tool panel: True

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

toolshed.g2.bx.psu.edu/repos/iuc/bcftools_query/bcftools_query/1.15.1+galaxy0

toolshed.g2.bx.psu.edu/repos/iuc/bcftools_query/bcftools_query/1.10 (this tool)

toolshed.g2.bx.psu.edu/repos/iuc/bcftools_query/bcftools_query/1.9+galaxy1

toolshed.g2.bx.psu.edu/repos/iuc/bcftools_query/bcftools_query/1.9

toolshed.g2.bx.psu.edu/repos/iuc/bcftools_query/bcftools_query/1.4.0

toolshed.g2.bx.psu.edu/repos/iuc/bcftools_query/bcftools_query/1.3.1

toolshed.g2.bx.psu.edu/repos/iuc/bcftools_query/bcftools_query/1.3.0

bcftools_query

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

Requirements:

name

version

type

bcftools

1.10

package

htslib

1.10

package

Functional tests

name

inputs

outputs

required files

Test-1

input_files: query.vcf
sec_query|format: %CHROM\t%POS\t%REF\t%ALT\t%DP4\t%AN[\t%GT\t%TGT]\n
sec_query|tsv: True

name: value

query.vcf
value