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DNA Ghost:

This note based blog covers bioinformatics and cancer genomics 

March 31, 2020

 

  In previous POST, we discussed some basics of probability distribution and corresponding hypothesis testing. Here let's continue this topic and talk about the usage of probability distribution in NGS data analysis. More specifically, why do we choose what we choose...

May 14, 2018

Identifying somatic mutation has always been challenging.

Tumor heterogeneity

The major challenge of calling somatic mutation is heterogeneity of tumor tissue. Unlike germline variants usually having allele frequency (AF) around either 50% or 100% with a little deviation...

April 10, 2018

Frequentist's approach: Assume sequencing error distribution.

Frequentist's method makes the null hypothesis that non-reference allele is caused by sequencing error and the sequencing error follows either binomial or Poisson distribution. Then we fit error rate into pro...

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