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HaplotyperCaller implemented by Google DeepVariant is used to identify germline variants. |
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HaplotyperCaller implemented by Google DeepVariant is used to identify germline variants. |
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#### [DeepVariant](<https://github.com/google/deepvariant>) 1.5.0 |
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```bash |
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```bash |
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# Calling variant |
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# Calling variant |
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deepvariant/bin/run_deepvariant --model_type=WGS --ref=${ref_dir}/${fasta} --reads=${recaled_bam} --output_vcf=${sample}_hc.vcf --num_shards=$(nproc) |
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deepvariant/bin/run_deepvariant --model_type=WGS --ref=${ref_dir}/${fasta} --reads=${recaled_bam} --output_vcf=${sample}_hc.vcf --num_shards=$(nproc) |