Dear all,
I have a locus of around 4000bp and I know that this locus is involved in showing a certain phenotype, lets call it phenotypeA.
I have resequenced 8 organisms of the same species, 4 with a 4 without phenotypeA. I aligned the reads on the locus and have snps and indel for all of them with the relative homozigosity level. Now I would like to know which are the snp or indel that differentiate the two phenotipic groups in order to understand which polymorphysm the phenotype rely on.
Any suggestion on how to do this?
thanks!
I have a locus of around 4000bp and I know that this locus is involved in showing a certain phenotype, lets call it phenotypeA.
I have resequenced 8 organisms of the same species, 4 with a 4 without phenotypeA. I aligned the reads on the locus and have snps and indel for all of them with the relative homozigosity level. Now I would like to know which are the snp or indel that differentiate the two phenotipic groups in order to understand which polymorphysm the phenotype rely on.
Any suggestion on how to do this?
thanks!
Comment