Question: Population Rate Calculation Programme
0
gravatar for jackuser1979
6.4 years ago by
jackuser1979860
US
jackuser1979860 wrote:

I have RNA seq of illumina paired reads mapped to reference genome (bam file) and VCF file from variant calling software. I would like to calculate population mutation rate (theta). Is there any good available programme or scripts already available?

ADD COMMENTlink modified 6.4 years ago by Zev.Kronenberg11k • written 6.4 years ago by jackuser1979860
0
gravatar for Zev.Kronenberg
6.4 years ago by
United States
Zev.Kronenberg11k wrote:

I would not suggest calculating the population mutation rate with RNA data. WGS would be your best bet. your estimate of theta will be much lower if you are just considering mRNA.

ADD COMMENTlink written 6.4 years ago by Zev.Kronenberg11k
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