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Supported tools are StringTie, Kallisto, and Cufflinks. There also is a `custom` option to annotate with data from any tab-delimited file.\n\n**vcf-info-annotator**\n\nA tool that will add data from a tab-delimited file to any user-specified field in the VCF INFO column.\n\n**vcf-genotype-annotator**\n\nA tool to add a new sample to an existing VCF file.\n\n**vep-annotation-reporter**\n\nA tool to create a tab-delimited (TSV) file of variants in a VCF and their VEP annotations.\n\n**ref-transcript-mismatch-reporter**\n\nA tool to identify variants in a VCF where the reference genome used to\nalign and call variants doesn't match the Ensembl reference transcript\nused by VEP for variant consequence annotations.\n\n**transform-split-values**\n\nA tool that extracts and manipulates values from existing sample fields and outputs the results to a TSV file.\n\n## Documentation\n\nPlease see [vatools.org](http://vatools.org) for the full documentation.\n\n## Install\n\n`pip install vatools`\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fgriffithlab%2Fvatools","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fgriffithlab%2Fvatools","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fgriffithlab%2Fvatools/lists"}