Question: Building Phylogenetic Tree For A 89-Sequences Msa File
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gravatar for layal
5.8 years ago by
layal10
Germany
layal10 wrote:

I tried many online tools in order to build a phylogenetic tree from a MSA file consisting of 89 long sequences. Most of the tools gave me an error in the output stating that the file is huge or similar statements. I tried Mobyle at pasteur also, and didnt work too. any suggestions for a good reliable online tool?

msa • 1.9k views
ADD COMMENTlink modified 5.8 years ago by Hamish3.1k • written 5.8 years ago by layal10

How long is the matrix? Must be >100K?

ADD REPLYlink written 5.8 years ago by Whetting1.5k

Pardon me! maybe I didnt get your question, shouldn't the size of the matrix be 89x89 ? I want to get this distance matrix, and then get the tree...

ADD REPLYlink written 5.8 years ago by layal10

No problem! I was wondering how long the alignment was. Building a tree with 89 sequences should be trivial unless the sequences are really long.

ADD REPLYlink written 5.8 years ago by Whetting1.5k
2
gravatar for Hamish
5.8 years ago by
Hamish3.1k
UK
Hamish3.1k wrote:

Given that the input size limits of on-line services tend to be in the 1 to 10MB region, this suggests that your sequences are very large.

In which case you will likely be better off downloading the appropriate software and performing the tree generation locally. For possible programs see:

ADD COMMENTlink written 5.8 years ago by Hamish3.1k
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