More posts like this
-
Problem aligning ggtree circular tree labels to right angles
written by blur 30Hi, I have made a very nice tree using ggtree package. It is circular but with the fan option - ie it has an open …
-
How to show an attribute next to the label in Cytoscape
written by Xiaokang 8The label shown on the node in Cytoscape is the name of that node. Can I also show an attribute next to the label? The …
-
root to node distance
written by phylofun 5I want to calculate the relative time from the tree root to the species' creation node for all species in my phylogeny. Is this possible …
-
prunning posterior distribution of trees in R
written by phylofun 5I have a posterior distribution of trees from a Bayesian analysis in `nexus` format. Is there a function in R to prune these trees to …
-
Combine node/branch labels from multiple trees into one
written by al-ash 21I'd like to combine boostraps/priors from multiple phylogenetic trees onto a reference tree topology. The trees would contain identical set of taxa (tip labels) and …
-
Gene Ontology R Package Query Directly from the Gene Ontology Consortium
written by biology1234 0I have a set of ENSEMBL IDs and I want to label them with their molecular components programmatically using R. There are many R packages …
-
KOG functional Enrichment Across Phylogeny given a list of terms for each node on tree
written by moranr 29HI, I have a phylogenetic tree. At each node of the tree I have a list of genes that are important at this node. I …
-
Convert From Graphviz (Dot Language) to Newick format
written by richard_95 0Hello, I'm working on gain/loss gene events and for that I'm using a tool that gives as an output a gene tree in Graphviz format …
-
Convert From Graphviz (Dot Language) to Newick format
written by richard_95 0Hello, I'm working on gain/loss gene events and for that I'm using a tool that gives as an output a gene tree in Graphviz format …
-
sequence evolution simulator
written by Abdullah 10<p>Hi,</p> <p>I have a set of sequences and a tree topology for these sequences.</p> <p>Is there an available tool that can make random mutations to …
Please explain how you have constructed the tree, please. They can be stored in different objects / formats, depending on the package that you're using