Pretty phylogenetic dendrogram from jalview

Hi ,
I wanted to make a dendrogram (like the one here:
http://en.wikipedia.org/wiki/Phylogenetic_tree ). For an alignment and
tree calculated inside Jalview/clustalw
I am interested in something that creates a publication manipulatable
format like Adobe Illustrator or EPS.

Does anyone have any ideas . Also I am curious how to get the tree
output from Jalview into that recommended program.

Thanks in advance
Hari

Hi Hari,

In the window where the tree is drawn in Jalview, go to File > output to textbox. This will give you the tree in Newick format. >From just a google search of “phylogenetic tree drawers” I found this:

http://iubio.bio.indiana.edu/treeapp/treeprint-form.html
http://www.phylodiversity.net/rree/drawtree/index.html

You can input the Newick format and the programs will draw the tree for you.

Here is also a very long list of tree editors:

http://bioinfo.unice.fr/biodiv/Tree_editors.html

Hope that helps!

Lauren

···

On Thu, May 13, 2010 at 12:02 PM, hari jayaram <harijay@gmail.com> wrote:

Hi ,
I wanted to make a dendrogram (like the one here:
http://en.wikipedia.org/wiki/Phylogenetic_tree ). For an alignment and
tree calculated inside Jalview/clustalw
I am interested in something that creates a publication manipulatable
format like Adobe Illustrator or EPS.

Does anyone have any ideas . Also I am curious how to get the tree
output from Jalview into that recommended program.

Thanks in advance
Hari


Jalview-discuss mailing list
Jalview-discuss@jalview.org
http://www.compbio.dundee.ac.uk/mailman/listinfo/jalview-discuss

Thanks to Reza Khayat and Lauren Hui,

Here is a summary of the responses to my question:
Reza suggested SplitsTree (www.splitstree.org). There's also
Optimage (http://www.manchester.ac.uk/bioinformatics/optimage/) that
allows you to do the tree in 3D.

Laurens email is reproduced below.

Thanks a tonne everyone.
Hari

In the window where the tree is drawn in Jalview, go to File > output
to textbox. This will give you the tree in Newick format. From just a
google search of "phylogenetic tree drawers" I found this:

http://iubio.bio.indiana.edu/treeapp/treeprint-form.html
http://www.phylodiversity.net/rree/drawtree/index.html

You can input the Newick format and the programs will draw the tree for you.

Here is also a very long list of tree editors:

http://bioinfo.unice.fr/biodiv/Tree_editors.html

Hope that helps!

Lauren

···

On Thu, May 13, 2010 at 3:02 PM, hari jayaram <harijay@gmail.com> wrote:

Hi ,
I wanted to make a dendrogram (like the one here:
http://en.wikipedia.org/wiki/Phylogenetic_tree ). For an alignment and
tree calculated inside Jalview/clustalw
I am interested in something that creates a publication manipulatable
format like Adobe Illustrator or EPS.

Does anyone have any ideas . Also I am curious how to get the tree
output from Jalview into that recommended program.

Thanks in advance
Hari