Re: module Bio::TreeIO

Ah, in that case you could use Bio::Tree::DistanceFactory to make a tree 
from your distance matrix, but I don't see how you could do any 
bootstrapping - unless you have a way of resampling the raw data so you 
can generate a set of bootstrap-replicate distance matrices.

Cheers,
Roy.

On 10/05/2016 16:17, lskatz wrote:
> Thanks!  I'll try to make a pull request soon, and I will look into ways I
> can make bootstrapping trees.  Thank you also for your code example.
>
> I only have a distance matrix derived from Mash and so I need a program to
> make a tree from distances.  I do not think I can use RAxML or Mr. Bayes,
> right?  So BioPerl would be the best way to go.  Programs like Emboss's
> fneighbor had certain drawbacks like taxon character limits, but BioPerl
> doesn't.
>
>
>
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