Tutorial: Y-DNA and mtDNA Haplogroup Predictor
2
gravatar for Shicheng Guo
19 months ago by
Shicheng Guo8.1k
Shicheng Guo8.1k wrote:

Here to introduce some tools to do Y-DNA and mtDNA Haplogroup Predictor

  1. https://dna.jameslick.com/mthap/

  2. https://ytree.morleydna.com/

  3. https://ytree.morleydna.com/extractFromAutosomal

  4. http://www.nevgen.org/

  5. https://dna.jameslick.com/mthap/

More tools are welcome to share.

haplogroup tutorial • 7.3k views
ADD COMMENTlink modified 11 months ago by moxu450 • written 19 months ago by Shicheng Guo8.1k
3
gravatar for moxu
11 months ago by
moxu450
moxu450 wrote:

I am looking for a good haplogroup classifier using either genotyped information (SNPs) or WGS information (sequencing). Which software products are the most popular (and accurate)?

Thanks!

ADD COMMENTlink written 11 months ago by moxu450
1

if you want to use vcf file as software input, for mtDNA, I think haplogrep is the most popular classifier https://github.com/seppinho/haplogrep-cmd.git. However, as I know, there is no available tool to predict Y haplogroup when you provide vcf file containing snps information as input. As a suggestion, you can get haplogroup dict in ISOGG websitehttps://isogg.org/tree/, then write your own scripts to predict Y haplogroup like ypredict-master mentioned above .

ADD REPLYlink written 11 months ago by Leon110
1

Thanks so much for the reply. How about MToolBox?

ADD REPLYlink written 11 months ago by moxu450
1

I have no experience with the method about MToolBox myself.

ADD REPLYlink written 11 months ago by Leon110
2
gravatar for Leon
11 months ago by
Leon110
Leon110 wrote:

https://github.com/N-damo/ypredict-master, the software is under development.

ADD COMMENTlink modified 11 months ago • written 11 months ago by Leon110
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