Somatic variant caller
1
0
Entering edit mode
7.3 years ago
CY ▴ 750

We are using Illumina's Somatic Variant Caller (https://www.illumina.com/documents/products/technotes/technote_somatic_variant_caller.pdf) to call somatic variant from tumor sample. Based on the Somatic Variant Caller description, it used Poisson model to calculate p-value for each variant to be true. My question is: Does somatic mutation follow poisson distribution? How? Any comments are appreciated. Thanks

next-gen variant calling somatic • 2.0k views
ADD COMMENT
3
Entering edit mode
7.3 years ago

The variant caller assumes sequencing errors are Poisson distributed. Looks like you get a call when the alt allele has a less than 1% chance of being a sequencing error given the number of supporting reads and the predefined error rate.

ADD COMMENT
0
Entering edit mode

Very precise explanation. Thanks

ADD REPLY

Login before adding your answer.

Traffic: 2998 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6