Question: Pop_Gen statistics from RNA SAM/BAM files
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gravatar for Arsalan
20 months ago by
Arsalan10
Arsalan10 wrote:

Dear Colleagues , I prepare a BAM/SAM file from mapping the raw RNA seq reads against a Trinity-build de novo reference transcriptome . I am wondering if there is any simple pipeline/packages to estimate basic statistics such as : per site synonymous/ non- synonymous diversity, heterozygous deficiency(Fis) , number of synonymous/non synonymous segregating sites and etc . I use to use bio++ . I guess there are other ways too. Thanks in advance

ADD COMMENTlink modified 18 months ago by Biostar ♦♦ 20 • written 20 months ago by Arsalan10

Try PopGenome

ADD REPLYlink written 18 months ago by Fabio Marroni2.1k
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