Question: Command Line Program For Constructing Phylogeny Tree In Minutes (500 Sequences)?
gravatar for onpelikan
3.3 years ago by
onpelikan0 wrote:

Hi, can you help me please with choosing the command line program/tool which is able to construct phylogenetic tree from 500 sequences in few minutes on standard machine/notebook (better is only one core).

I tried: raxmlHPC-SSE3 and its 17min for 200 sequences. End for 400 sequences is in hours. I tried some others but with similar results. Is there something wrong or is there some program/tool that can do that faster?

Thank you very much.

phylogeny • 1.4k views
ADD COMMENTlink modified 3.3 years ago by cts1.4k • written 3.3 years ago by onpelikan0
gravatar for cts
3.3 years ago by
cts1.4k wrote:

How about FastTree, it should easily handle 500 in a few minutes

ADD COMMENTlink written 3.3 years ago by cts1.4k

Thank you very much. The FastTree is really fast. But some problem with the root occurs. Here is another question about it: FastTree - how to remove trifurcation inside tree?

ADD REPLYlink written 3.3 years ago by onpelikan0
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