Question: How to generate a family level phylogeny?
gravatar for zoe.meziere
9 weeks ago by
zoe.meziere0 wrote:

Hi all,

I want to generate a 16S family level phylogenetic tree of a bacteria family, and include on the sequence I have to see where it falls within the family. I know the SILVA database has a lot of 16S sequences, that I downloaded. But making a tree out of all those sequences requires much space, that my laptop doesn't have. Also I don't need thousands of sequences. Just enough to have representative sequences to cover the whole family.

So how should I go about this?

Thanks in advance :)

16s phylogeny • 159 views
ADD COMMENTlink written 9 weeks ago by zoe.meziere0

Do you have any access to hardware with more power than your laptop?

ADD REPLYlink written 9 weeks ago by jrj.healey11k

Check out those cloud services such as aws(amazon web services). You pay for it base on your demand. A 16g memory for 5 hours only takes you around $20. Plus, have you checked the qiime2's phylogenic tree function? That actually doesn't use a ton of resources.

ADD REPLYlink written 9 weeks ago by zhuchcn0
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