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Repository revision

Revision: 6:1829900b5dcd

Repository 'bcftools_consensus'

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

bcftools consensus tool metadata

Miscellaneous

Name: bcftools consensus

Description: Create consensus sequence by applying VCF variants to a reference fasta file

Id: bcftools_consensus

Guid: toolshed.g2.bx.psu.edu/repos/iuc/bcftools_consensus/bcftools_consensus/1.4.0

Version: 1.4.0

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_consensus/bcftools_consensus/1.9

toolshed.g2.bx.psu.edu/repos/iuc/bcftools_consensus/bcftools_consensus/1.4.0 (this tool)

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

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

bcftools_consensus

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

Requirements:

name

version

type

bcftools

1.4

package

htslib

1.4

package

samtools

1.3.1

package

Functional tests

name

inputs

outputs

required files

Test-1

input_file: consensus.vcf
sec_default|fasta_ref: consensus.fa
sec_default|mask: consensus.tab
chain: True

name: value
name: value

consensus.vcf
consensus.fa
consensus.tab
value