Thanks Ih3, so your suggestion is not setting maximum depth only for chrM? Watson has ~2m SNPs got from www.jimwatsonsequence.cshl.edu, in some literature supposed >3m snps in watson, what's the reason for that? filtering ?
Thanks
-
Don't set a maximum depth in filtering. You usually get thousands folds of coverage on chrM.Leave a comment:
-
No snp found in chrM?
Dear All,
It's hard to find SNPs in mitochondrial by samtools default setting, like D=100. I have explored several human genome data, NA18507, SJK, Venter, Watson, no snps found in ChrM.
For Chinese han, e.g YH genome, soap found 36 SNPs in chrM, seven are novel, samtools found nothing.
Can anyone explain? Thanks
-
Tumors contain complex mixtures of cell populations that evolve in response to treatment and host-specific factors. Tissue biopsies provide only static snapshots of a tumor’s state. But what if we could follow that evolution over time using a minimally invasive technique?
Liquid biopsies can detect tumor-derived material circulating in the bloodstream, providing a way to study treatment response, detect emerging resistance, and discover new biomarkers. Circulating...10-14-2026, 09:55 AM -
Researchers using sequencing and genomics tools often have to make trade-offs. They can choose between speed or scale, short reads or long-range information, or targeted panels or a view of the whole transcriptome. New technologies that have been released this year are built to address those tough choices.
We asked six companies the same four questions to learn about their latest products. The new technologies bring a lot to the table, including rethinking sequencing...
Leave a comment: