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This APP developed for germline and somatic short variant discovery (SNVs + Indels).

**Accepted data**
* TN matched WES for somatic variant calling
* TN matched WGS for somatic variant calling
* Normal-only WES for germline variant calling
* Normal-only WGS for germline variant calling
* TN matched or tumor-only WES/WGS for somatic variant calling
* Normal-only WES/WGS for germline variant calling

The datatype is judged by whether the bed file is set (i.e. the `regions` in inputs).


**Supported variant callers and annotation tools**

* Variant calling: `haplotyper` (germline); `tnseq`, `tnscope`, `varscan` (somatic).
* Variant calling: `haplotyper`, `pindel` (germline); `tnseq`, `tnscope`, `varscan` (somatic; `varscan` don't support the variant calling of tumor-only data).
* Annotation: `annovar`, `vep`.

* The above tools are <u>**not activated by default**</u>, which means the default setting is `false`. You need to manually set the caller to `true` in the submitted sample.csv.

### New Releases

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