How to download an alignment from TreeBase according to accession numbers
1
0
Entering edit mode
10.2 years ago
Yongjie Zhang ▴ 110

Hi,

Could anybody tell me how to download an alignment from TreeBase if I have the accession number provided by the author of a paper?

Thanks in advance.
Yongjie

TreeBase • 2.8k views
ADD COMMENT
0
Entering edit mode
10.1 years ago
Joseph Hughes ★ 3.0k

Go to TreeBase, click on the "search TreeBase" button on the left, type in the study number from the paper (e.g., S1234), click search.

Tick the box that corresponds to your study and on the right-click the little icon of a document with a green arrow pointing down to download the NEXUS formatted file. This file has the aligned matrix and the trees in nexus format.

For example, you are interested in study S12813 and here is the screenshot of the result for that accession:

ADD COMMENT
0
Entering edit mode

Thanks, Joseph. But do you know why the Treebase accession numbers I want to search, S12813 and 12641, have no matching studies found?

ADD REPLY
0
Entering edit mode

Accession 12641 does not exist but I found something for S12813. Contact the authors to check whether they have made a typo with the accession number, or alternatively search TreeBase by author name or species name.

ADD REPLY

Login before adding your answer.

Traffic: 3057 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6