Question: Neighbor Joining And Distance
0
gravatar for rmoenree
5.8 years ago by
rmoenree0
rmoenree0 wrote:

Hi!

I have made a phylogenetic tree of a few genes from different organisms. How can I interpret the distance scores? What do they actually mean? After some googling I found a suggestion that it may be a measure of the ratio of matches to mismatches in the aligned sequences, but I haven't been able to confirm it.

I made the tree in Jalview using the neighbor joining by percent identity method.

Thanks,

Rasmus

alignment distance • 2.8k views
ADD COMMENTlink modified 2.2 years ago by minacom_840 • written 5.8 years ago by rmoenree0

I hope that by "a few genes from different organisms", you mean "the same gene from different organisms". Otherwise, your tree is completely meaningless. I'd also suggest (1) more web searching ("neighbor joining distance" returns lots of informative results) and (2) as suggested in the answer below, finding an online molecular evolution course, so as you understand what you are doing.

ADD REPLYlink written 5.8 years ago by Neilfws48k
1
gravatar for sirenbeserker
5.8 years ago by
sirenbeserker70 wrote:

This might help? Online course in computational molecular evolution. Seems to have a bunch of phylogeny and neighbour joining. I haven't tried it (it has only just become available), but it might help you.

ADD COMMENTlink written 5.8 years ago by sirenbeserker70
0
gravatar for minacom_84
2.2 years ago by
minacom_840
minacom_840 wrote:

how calculate genetic distance matrix in neighbor joining for phylogenetic tree

ADD COMMENTlink written 2.2 years ago by minacom_840
0
gravatar for minacom_84
2.2 years ago by
minacom_840
minacom_840 wrote:

how calculate genetic distance matrix in neighbor joining for phylogenetic tree

ADD COMMENTlink written 2.2 years ago by minacom_840
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