Question: How to draw phylogeny tree for long genomes? ('msa' taking much time)
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gravatar for vinod.acear
2.9 years ago by
vinod.acear40
India
vinod.acear40 wrote:

How to draw phylogeny tree of 1100 genomes belonging to diffrent linages of same spices, Where each sequence consists of ~100000 SNPs locations of genome, I tried 'msa' package with default parameters, but it is taking much longer time. Please suggest me any trick to do this.

phylogenetic msa • 488 views
ADD COMMENTlink modified 2.9 years ago by UBodenhofer250 • written 2.9 years ago by vinod.acear40
Answer: How to draw phylogeny tree for long genomes? ('msa' taking much time)
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gravatar for UBodenhofer
2.9 years ago by
UBodenhofer250
Johannes Kepler University, Linz, Austria
UBodenhofer250 wrote:

I do not understand why you use 'msa' for that purpose. If you are considering SNP data, the SNPs are already aligned, so there is no need to align the genomes. I also wonder how you can deal with SNPs across different species. Please specify in much more detail what your setup is and what you want to do.

ADD COMMENTlink written 2.9 years ago by UBodenhofer250
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