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5.2 years ago
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I like to draw a phylogenetic tree for some samples based on SNP regions and genotype for each sample, I used 'SNPhylo' but it couldn`t help me because I only have 90 SNP regions and I got error based on 'SNPhylo'. I would like to know is there any way to draw a nice tree based on the data that I have?
Data:
ID REF alleles gt gt_0 gt_1 gt_2 gt_3 gt_4
rs10168838 T G,T, GG GG GG GG GG GG
rs10209944 A A,G, GG GG GG GG GG GG
rs1115049 A A,G, GG GG GG GG GG GG
rs1115050 A A,C, CC CC CC CC CC CC
rs13014347 T C,T, CC CC CC CC CC CC
rs1517402 A A,T, TT TT TT TT TT TT
rs1529408 G G,T, GT TT TT TT TT GT
rs1545121 G A,G, AA AA AA AA AA AA
rs1561247 C C,T, TT TT TT TT TT TT
rs1809028 A A,G, AG AG GG GG GG GG
rs1863812 T C,T, TC CC CC CC CC TC
rs2072447 G C,G, CC CC CC GC CC CC
rs2075221 C C,G,T, TT TT TT TT TT CT
rs2286238 T C,T, CC CC CC CC CC TC
rs2303599 C C,T, CT TT TT TT TT TT
rs2303604 A A,T, AT TT TT TT TT AT
rs2305155 A A,G, AG GG GG GG GG GG