Question: (Closed) What genes from Tuberculosis WGS to select for building a phylogenetic tree?
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vassialk • 190 wrote:
What genes from Tuberculosis WGS to select for building a phylogenetic tree? It seems that no machine can build a phylogenetic tree from a whole genome. What software is appropriate for building a phylogenetic trees from tuberculosis Illumina sequences?
Given that the TB genome is ~4Mb, it is possible to create a tree using SNPs from whole genome sequences using software such as RAxML. I would suggest you try something like TREX online if you want access to a machine that'll use WGS.
Alternatively, using genes such as MLST genes would be a quick and easy way, but not at the same resolution as WGS.
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