Question: sequence evolution simulator
2
gravatar for Abdullah
4.2 years ago by
Abdullah100
Germany
Abdullah100 wrote:

Hi,

I have a set of sequences and a tree topology for these sequences.

Is there an available tool that can make random mutations to the sequences given a specific position on the tree?

assuming I have this tree : (A,(B,(C,D)1)2)3;

A,B,C and D are species inside the tree.

I want to lets say select internal node 3 and make one random mutation to all species within this node.

Then take node 2 and make one other random mutation to all species there... and so on for all internal nodes in the tree where the choice if a mutation exists or no on this edge is also chosen randomly.

Is there any available tools? Otherwise I would implement one on my own?

sequence • 1.1k views
ADD COMMENTlink modified 4.2 years ago by David W4.7k • written 4.2 years ago by Abdullah100
2
gravatar for David W
4.2 years ago by
David W4.7k
New Zealand
David W4.7k wrote:

You are pretty much describing seq-gen, which allows you to use different models of seqeunce evolution and actually places mutations on branches rather in nodes (or, at last, takes branch lengths into account when simulating mutations).

ADD COMMENTlink modified 4.2 years ago • written 4.2 years ago by David W4.7k
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