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TheBrownLab / PhyloFisher

PhyloFisher is a software package written in Python3 that can be used for the creation, analysis, and visualization of phylogenomic datasets that consist of eukaryotic protein sequences.
MIT License
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Including BUSCO's metazoa_odb10 dataset #108

Closed dongzhang0725 closed 10 months ago

dongzhang0725 commented 11 months ago

Dear developer,

Thank you for developing PhyloFisher. It is an excelent tool. I recently started working on a project that involves studying the phylogeny of Metozoa, and I wonder whether PhyloFisher can work on the BUSCO's metazoa_odb10 dataset. The reason I am sking this is that BUSCO's dataset contains more genes than the dataset curated by PhyloFisher: 954 vs. 240. If it is possible, I would appreciate if you could instruct me how to do it.

Thank you very much!

Sincerely,

Dong

atice commented 11 months ago

Hi Dong,

Thank you for your interest in PhyloFisher! Yes, you should be able to create a custom PhyloFisher database from the BUSCO metazoa_odb10 dataset. I will paste the link to our instructions on how to create a custom database below. After you have read through them, let me know if you have any questions. I am happy to help you with however I can.

https://thebrownlab.github.io/phylofisher-pages/getting-started/custom-dataset-prep/

Alex

Alexander K. Tice, Ph.D. Assistant Professor Department of Biological Sciences Texas Tech University Office: 313 Lab: 308 & 313A Phone: (806) 834-6444

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Dear developer,

Thank you for developing PhyloFisher. It is an excelent tool. I recently started working on a project that involves studying the phylogeny of Metozoa, and I wonder whether PhyloFisher can work on the BUSCO's metazoa_odb10 dataset. The reason I am sking this is that BUSCO's dataset contains more genes than the dataset curated by PhyloFisher: 954 vs. 240. If it is possible, I would appreciate if you could instruct me how to do it.

Thank you very much!

Sincerely,

Dong

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dongzhang0725 commented 11 months ago

Dear Alex,

Thank you for your quick reply, I will learn this tutorial carefully, and collect related data to give it a try.

Sincerely, Dong