Workflow Steps and Code Snippets

450 tagged steps and code snippets that match keyword tabix 

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shell:
    "for i in {input.vcfs}; do tabix -l $i; done > {output}"
SnakeMake tabix From line 39 of rules/common.smk

Whole exome sequencing snakemake workflow based on GATK best practice 

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shell:
    """
    gatk --java-options '-DGATK_STACKTRACE_ON_USER_EXCEPTION=true' \
        GatherVcfsCloud \
        --ignore-safety-checks \
        --gather-type BLOCK \
        {params.gvcfs} \
        -O {output}

    tabix {output}
    """
SnakeMake gatk tabix From line 1174 of rules/gatk-bwa-pipeline.smk
tool / bioconda

tabix

C library and command line tools for high-throughput sequencing data formats.

bioconda tabix
GitHub samtools/htslib
license: MIT
version: 1.11
signature: tabix
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