--ref=${ref_dir}/${fasta} \ | --ref=${ref_dir}/${fasta} \ | ||||
--reads=${Dedup_bam} \ | --reads=${Dedup_bam} \ | ||||
--num_shards=$nt \ | --num_shards=$nt \ | ||||
--regions="'chr1 chr2 chr3 chr4 chr5 chr6 chr7 chr8 chr9 chr10 chr11 chr12 chr13 chr14 chr15 chr16 chr17 chr18 chr19 chr20 chr21 chr22 chrX'" | |||||
--call_variants_extra_args="use_openvino=true" \ | --call_variants_extra_args="use_openvino=true" \ | ||||
--output_vcf=${sample}_DP.vcf.gz | --output_vcf=${sample}_DP.vcf.gz | ||||
>>> | >>> |