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Haplotypecaller running in parallel for each chromosome
I would like to run haplotypercaller with -ERC GVCF on each chromosome in parallel. Then run GenotypeGVCFs.
Do I need to first concatenate the results from each chromosome in sample1.chr_merged.g.vcf ... files then run GenotypeGVCFs with sample1.chr_merged.g.vcf , sample2.chr_merged.g.vcf .... or is it possible to run GenotypeGVCFs directly?