Methods to identify monophyletic clades

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Wu Huang

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Apr 7, 2021, 6:24:34 AM4/7/21
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Hi all,

I am wondering if anyone possibly know any methods or scripts for identifying monophyletic clades on tree files smarter than manual counting? 

Say I have a list of taxon names of potentially monophyletic clades, what I am doing now is to see if they form a monophyletic clade on a visualised tree. It works, but that mean every time I change a parameter to build the phylogeny, I need to visualise the tree and do the manual checking again. I think there must be a clever way.

Thanks in advance.
Wu

João Tonini

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Apr 7, 2021, 7:37:35 AM4/7/21
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Hi, I believe Monophy might be helpful to you. 

Best
João

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João F. R. Tonini, Ph. D. 
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Department of Organismic and Evolutionary Biology
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Harvard University
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黄雾

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Apr 7, 2021, 11:51:55 AM4/7/21
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Thank you João!

It looks like to be exactly what I am looking for. I’ll explore it.

Cheers,
Wu

李兴广

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Apr 9, 2021, 10:40:04 PM4/9/21
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clusterpicker is good choice for me.

Wu Huang

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Apr 12, 2021, 11:30:39 AM4/12/21
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Thank you! I'll try it out.

李兴广

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Apr 13, 2021, 1:11:30 AM4/13/21
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you are welcome.  I also attched the link for you, hope that help to you. ClusterPicker (https://hiv.bio.ed.ac.uk/software.html).
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