Yige Wang
Yige Wang
Okay, I get it. It's really not an easy problem to solve and it's hard to balance. Thanks a lot for your reply!
By the way, I got another problem when genotyping. The command I run is: `smoove genotype -p 1 --name C001 --outdir /DELs/C001 --fasta /genome_hg38/hg38.fa --duphold --vcf samples_merged_DEL.vcf C001.sort.mkdup.realign.cram` And for...
> Hi, smoove square is simply calling bcftools merge. That command suffers with large sample sizes such as yours. You might need to write your own (simply concat the columns)....
Hi, My genotype vcf files and index files seem fine. Thanks again for your reply!!! Best regards, Yige Wang