If I have already aligned my reads against the human reference genome, is it a good idea to first take reads with samtools that align to chr6 and alternative chr6 contigs, and HLA contigs. Then I wouldn't have to align the whole set of reads against the human reference genome, which takes longer
b-schubert
commented
2 months ago
Hi,
If I have already aligned my reads against the human reference genome, is it a good idea to first take reads with samtools that align to chr6 and alternative chr6 contigs, and HLA contigs. Then I wouldn't have to align the whole set of reads against the human reference genome, which takes longer