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tags/v0.3.0
Haonan917 1 年之前
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@@ -112,6 +112,8 @@ samtools index -@ $(nproc) -o ${sample}.sorted.deduped.bam.bai ${sample}.sorte

HaplotyperCaller implemented by Google DeepVariant is used to identify germline variants.

#### [DeepVariant](<https://github.com/google/deepvariant>) 1.5.0

```bash
# Calling variant
deepvariant/bin/run_deepvariant --model_type=WGS --ref=${ref_dir}/${fasta} --reads=${recaled_bam} --output_vcf=${sample}_hc.vcf --num_shards=$(nproc)

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