Question: add an outgroup to an unrooted tree
0
gravatar for ftp
3.4 years ago by
ftp120
United States
ftp120 wrote:

Hello,

I have a multiple sequence alignment containing 7 taxa + an outgroup. I generate a unrooted species phylogeny from the 7 taxa. Now I have an unrooted tree. I would like to root this tree using the outgroup. Basically I would like to use the multiple sequence alignment containing the 7 taxa + the outgroup and the unrooted tree that i inferred to root it (to add the outgroup to it). Is there anyway to do this in paup software?

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ADD COMMENTlink modified 3.4 years ago by h.mon24k • written 3.4 years ago by ftp120

Use FigTree to open most phylogenetic tree formats. It allows you to chose any root you want.

ADD REPLYlink written 3.4 years ago by apelin20470
0
gravatar for h.mon
3.4 years ago by
h.mon24k
Brazil
h.mon24k wrote:

I didn't use PAUP* for the last 10 years or so, so I do not recall in detail the commands, but you just have to ask for a tree rooted on outgroup and define an outgroup on your paupblock:

begin paup;

[commands ...]

set root=outgroup;

outgroup species1;

[more commands ...]

end;
ADD COMMENTlink modified 3.4 years ago • written 3.4 years ago by h.mon24k
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