Question: How To Cluster Data That Contains Minor Allele, Somatic And Germline Frequencies
0
gravatar for lo.hope81
5.6 years ago by
lo.hope810
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 • 2.1k views
ADD COMMENTlink modified 5.6 years ago by Istvan Albert ♦♦ 79k • written 5.6 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 5.6 years ago by Sean Davis25k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1448 users visited in the last hour