Can I get only distance matrix from Clustal Omega
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7.2 years ago
siso ▴ 20

Hello,

I'm using Clustal Omega to calculate distance between RNA seq. I like to know if I can calculate only distance without making alignment?

Thanks

Best

RNA-Seq clustal-omega alignment • 3.6k views
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I don't think it is possible. Anyway, why do you want to use an alignment program and not perform an alignment? There are programs devoted to distance calculation.

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@h.mon Can you please tell me which ones are good?

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You can find several alternatives here (note: not all perform distance calculations). I don't know which ones are "good" for distance calculation, but HyPhy, MEGA and Phylip are three very good packages for several aspects of phylogeny inference, including distance calculation.

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