Open mtorralvo opened 4 years ago
Hi,
1000 Genomes consortium has also provided a phase 3 mtDNA variant call set (http://ftp.1000genomes.ebi.ac.uk/vol1/ftp/release/20130502/) you can use as comparison, although I am not aware of the quality control advised on that variant calling. We do not provide a curated set of MToolBox variants calls for 1000 Genomes at the moment, but we can definitely recommend to :
There are also couple of useful readings on this topic, e.g. : https://www.ncbi.nlm.nih.gov/pubmed/30098421 https://www.ncbi.nlm.nih.gov/pubmed/20696290 https://www.ncbi.nlm.nih.gov/pubmed/25319266
Finally, feedback and suggestions on how to improve MToolBox variant calling quality control are very much appreciated.
best regards, Claudia
Hi,
I've been trying to compare some variant calling methods to use on mitochondria NGS data. I've seen that you test your pipeline with HG00119 and I was wondering if you had curated a set of high confidence variants from this or another 1000Genomes's individuals. I have not been able to find anything similar anywhere.
Thanks in advance, María