I have performed the pyrosequencing of breast cancer patients (n=80). Now I am willing to analyze the data for haplotypes, cluster view and phylogenetic tree, but I dont know the softwares used for this purpose. Anyone can help me or guide in this regard.
Thanks
Dear Faisal,
The last SNP data analysis that I have performed was after sequencing 117 leukemia patients. I could analyze the SNP position, the polymorphism of each patient, and compare them with a control group using BioEdit. Took some time to do it and check it.
However I didn't need to do phylogenetic trees or cluster view, so I can't help you with that.
Hope it helps. Best wishes,
Marc
Hello Faisal,
My research is really not focused on human disease states, but we did use SNP markers for conservation genetic analyses of a rare plant. Population genetic analyses used, but not too much of a stretch for phylogenetic relationships. Broaden your search key terms to include SNP, phylogenetics, population genetics and you will have some hits. Include some well studies human disease and you will probably get all you could possibly want. Some of the software (GenAlEx) is actually free. Danny
Dear Danny
Thanks for your kind reply and update me regarding the software.
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