forester
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cmzmasek
forester is a collection of open source libraries of Java and Ruby software for phylogenomics and evolutionary biology research
This modifies the layout of the java part of the project and adds a pom.xml file so that the project can be used with maven, see #12
Hi! The license of this tool is "hidden" under forester/doc. Even github does not find it. Therefore, I suggest to place it in a more standard location, i.e., in the...
I am seeing an issue with reading phylogenies with your library. I have multiple files to read phylogenies from sequentially. Issue is that, once I read the first file, the...
Hi! thank you for the tool! {colour-coding is red/blue/green based on reads mapping against specific edges} Is it possible at all to retain only the coloured and/or wider branches of...
Phyloxml trees with colored nodes or branches are sometimes displayed in black and white. Opening additional trees in archaeopteryx tends to solve this issue, as does restarting the app. This...
Hi, the Debian Med team (a group inside Debian with the objective to package free software in life sciences) considers packaging forester for official Debian. It would simplify our work...
I have created an Ubuntu snap package for archaeopteryx, to make it easy for ubuntu users to install it. For now, it is based of the .jar from the latest...
At [BioJava](https://github.com/biojava/biojava) we are using the forester library within the biojava-phylo module. It's all working great with forester, except for the dependency management. We use maven (as many people these...
``` I am using forester_1023.jar which I found there is no more this constructor, how could I make nodes with my own names? Thanks! ``` Original issue reported on code.google.com...
``` Steps to reproduce problem: 1. Open up two identical trees with very different branch lengths 2. Switch each window view mode to "Unrooted" 3. Observe that the scales in...