Question: Salmonella Typhimurium Strain Lineage
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gravatar for Fid_o
10 months ago by
Fid_o20
Fid_o20 wrote:

I have 900 assembled Salmonella Typhimurium ST313 sequences (.FASTA files, average sequence size 4.7MB). Basic information says there are two lineages of salmonella strains - one an old lineage and another a newer one. The newer one has 22 SNP differences from the old one.

I need to separate which ones are the newer strains and which ones are the older ones. How do I get around this?

Am working from Linux.

linux snp salmonella lineage • 156 views
ADD COMMENTlink written 10 months ago by Fid_o20

try quantTB tool, its basically for TB strains but you can build your own database as well

ADD REPLYlink written 10 months ago by hafiz.talhamalik250
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