Question: How To Cluster Data That Contains Minor Allele, Somatic And Germline Frequencies
gravatar for lo.hope81
6.7 years ago by
lo.hope810 wrote:

Please help. I am new in field and do not know how we can distinguish between somatic and germline mutations by comparing their variant frequencies. I'm also a bit confused what is the difference and how we calculate the following: MAF (minor allele frequency) and variant frequency. from NGS data, I have several tsv files that contains thousands of lines that contains minor allele, somatic and grmline frequencies, each file for one individual, and I need to cluster them in groups based on those frequencies. How I can do it,? what tools/softwares/steps can I use? is there any recommended readings (easy to understand) that might help me understand how to deal with and analyse data from NGS. Thanks

variation • 2.4k views
ADD COMMENTlink modified 6.7 years ago by Istvan Albert ♦♦ 83k • written 6.7 years ago by lo.hope810

I would suggest finding a local collaborator to help you. Finding and characterizing somatic variants is still quite challenging despite a lot of good work in the area.

ADD REPLYlink written 6.7 years ago by Sean Davis26k
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