Phylonco v0.0.6

kche309 released this 23 Feb 10:03

· 283 commits to master since this release

4dbf61b

Requirements

Beast2 version 2.6.6 or greater
BEASTLabs version 1.9.7 or greater
lphybeast version 0.3.0 or greater

Release notes

Fix error message when running BEAST2 with Beagle installed
Added BEAUti support for Binary substitution model
Made examples more robust by adding parameter bounds
Gradle builds now replace Ant builds
Added compatibility with LPhy v1.2.0 and LPhyBeast v0.3.0
For available LPhy functions see lphy/doc/index.md

Setup instructions

BEAST2 with phylonco:

See the user guide https://github.com/bioDS/beast-phylonco/blob/v0.0.6/README.md

LPhy and LPhyBeast:

See requirements in https://github.com/LinguaPhylo/linguaPhylo/releases/tag/1.2.0
Download and unzip the LPhy v1.2.0 release https://github.com/LinguaPhylo/linguaPhylo/releases/tag/1.2.0
Download and move phylonco-lphy-0.0.1.jar to your LPhy install directory lphystudio-1.2.0/lib
For LPhyBeast setup see https://linguaphylo.github.io/setup/
To launch LPhy, navigate to your lphystudio-1.2.0 directory then run

java -p lib -m lphystudio

Assets 6