Biostar Beta. Not for public use.
sequence evolution simulator
2
Entering edit mode
4.3 years ago
Abdullah • 100
Germany

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 • 1.2k views
ADD COMMENTlink
2
Entering edit mode
4.8 years ago
David W 4.7k
New Zealand

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

Login before adding your answer.

Similar Posts
Loading Similar Posts
Powered by the version 2.3