Hi everyone, I am pruning a phylogenetic tree (gene tree) to create a simplified figure with a smaller number of taxa represented. This process will …

Hello, just made a tree in MEGA. I used Neighbor-joining tree and boostrap method with 1000 replicates. This is the result ![enter image description here][1] …

I have to test the selection for each leaves in a phylogenetic tree. In normal case(with codeml), I will be running model zero for all …

Hi there, I've constructed the tree with bootstrap supports in `Ape` package. But i'd prefer to get bootstrap values in percentage not in absolute number …

Hey all, i need to generate a tree file (nexus or newick preferably) with bootstrap values embedded. my idea is to export then the file …

Hi, I downloaded gg_13_5_otus_99_annotated.tree.gz from [http://greengenes.secondgenome.com/downloads/database/13_5][1] which contains a newick tree of 16S RNA taxonomy. I would like to extract a simple phylogeny tree, for …

Hi all, I have a newick format tree with about 70 sequences. I created the tree with 1000 bootstraps. However when I visualise the file …

Hello All, In my fungus, I found diverse intron presence/absence dynamics among different isolates. I have built a tree using **exon sequences** and want to …

I am currently using the excellent R packages 'Phangorn' and 'ape' to do some parsimony-based phylogenetic analysis with the 'pratchet' fuction (parsimony ratchet) and have …

<p>Hello,</p> <p>I have an alignment which I used to produce ML (with bootstrap) and Bayesian trees. Is there any way I can use a tool …