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Relative Rate Test for groups ? (Read 3860 times)
Zuril
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Relative Rate Test for groups ?
Feb 12th, 2007 at 9:10am  
Hello dear HyPhy community,

Do someone know how performing relative rate tests with lineages or groups rather than using single sequences (with one reference sequence for all comparisons)?

Would that make sense ?

Thank you.
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Sergei
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Re: Relative Rate Test for groups ?
Reply #1 - Feb 12th, 2007 at 9:22am  
Dear Zuril,

Are you trying to test the relative rate hypothesis on a tree like (outgroup, (clade1), (clade2)), where clade1 and clade2 are subtrees (instead of single sequences)? Effectively, do you want to assess whether the (say) average rate in clade1 is higher that it is in clade2?

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Sergei
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Zuril
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Re: Relative Rate Test for groups ?
Reply #2 - Feb 13th, 2007 at 12:55am  
Dear Sergei,

Effectively, you perfectly described my objective. I was using the RRTree  software (Robinson-Rechavi & Huchon, 2000) before, but it offers only a K2P model.

Regards,

Zuril
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Zuril
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Re: Relative Rate Test for groups ?
Reply #3 - Feb 21st, 2007 at 11:42pm  
Hello,

Quote:
test the relative rate hypothesis on a tree like (outgroup, (clade1), (clade2)), where clade1 and clade2 are subtrees (instead of single sequences)


Is there a way to do that with HyPhy ?

Thank you.
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