Question: Create a Phylogenetic tree in R
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gravatar for delcophantom8491
5 months ago by
delcophantom84910 wrote:

I am new to R and in my bioinformatics class we were asked to create a phylogenetic tree using R. I was given a list of sequences to run a clustalw2 using the executable file clustalw2.exe. I have a .aln file of the sequences and now need to translate that into a neighbor joining rooted tree. Does anyone have any suggestions?

R • 478 views
ADD COMMENTlink written 5 months ago by delcophantom84910

Most R packages are for visualising and analysing trees you already have. You can use Clustal to create a NJ tree from your .aln file first.

You can then use something like the ape package to do any further analysis.

ADD REPLYlink written 5 months ago by jrj.healey11k

How can I create an NJ tree from the .aln file I have?

ADD REPLYlink written 5 months ago by delcophantom84910
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