All Questions
5 questions
2
votes
0
answers
133
views
Phylogenetic tree from a large FASTA file
I want to create a phylogenetic tree using a 3.8MB FASTA file with ambiguous code. How can I perform multiple sequence alignment and the construction of phylogenetic tree with these ambiguous codes?
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- 21
1
vote
1
answer
179
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Phylogeny building in R from FASTA files:
Im working on building a phylogeny from scratch with downloaded FASTA sequences from GeneBank. I think Im doing alright up until the multi sequence alignment in the ...
- 111
1
vote
1
answer
47
views
Add segregating sites to branches of a tree
I'm trying to figure out how I would plot a tree with number of segregating sites on display on the branches
I'm using acctran from phangorn to plot a parsimony tree (using phydat object from fasta ...
- 121
1
vote
1
answer
443
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phangorn fasta file read error
Im trying to read a multifasta sequence file into phangorn I get the following error
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- 1,854
2
votes
2
answers
447
views
Issue with visualising cladogram/phylogenetic tree with multiple sequence alignment data in R?
I would like to visualize tree with multiple sequence alignment.
My din.newick file is shown below,
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- 109