Question: Pop_Gen statistics from RNA SAM/BAM files
gravatar for Aremkh
3.2 years ago by
Aremkh20 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 3.0 years ago by Biostar ♦♦ 20 • written 3.2 years ago by Aremkh20

Try PopGenome

ADD REPLYlink written 3.0 years ago by Fabio Marroni2.6k
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