Population structure and PCA viewer
This GitHub site is for Genesis 1, which we regret can no longer be supported. JAR files are availabe for Genesis 1 for Windows, Mac OS and Linux and should run as of November 2024. However no new development or bug fixes can be done
We have redeveloped Genesis with a new framework.
You can find our beta version on the Genesis 2 GitHub site
August 2021 Updates (bug fixes -- system specific)
Program takes as input output of PCA or admixture programs and allows user to interactively produce publication quality pictures.
- the manual can be found in the doc directory
- You need only download the Genesis.jar file which requires Java 1.7 or 1.8.
Run the program like this on an Apple
java -XstartOnFirstThread -jar Genesis.jar
And like this on Windows/Linux
java -jar Genesis.jar
You can download documentation and examples. While you can do all of this individually, you can also get a copy of everything by cloning
git clone https://github.com/shaze/genesis
Download the following platform-independent jars to the src directory
org.eclipse.core.commands-3.10.0.jar org.eclipse.core.runtime-3.7.0.jar batik-all-1.8pre-r1084380.jar org.eclipse.equinox.common-3.15.0.jar itextpdf-5.5.9.jar org.eclipse.jface-3.6.0.jar jfreechart-1.5.3.jar org.w3c.dom.svg-1.1.0.jar jfreesvg-3.4.1.jar
Reasonably similar versions of the above should be fine.
Move to the src directory and do
for j in org.eclipse.core.commands-3.10.0.jar org.eclipse.core.runtime-3.7.0.jar batik-all-1.8pre-r1084380.jar org.eclipse.equinox.common-3.15.0.jar itextpdf-5.5.9.jar org.eclipse.jface-3.6.0.jar jfreechart-1.5.3.jar org.w3c.dom.svg-1.1.0.jar jfreesvg-3.4.1.jar; do
jar -xf $x;
done
Download the swt.jar specific for your platform to the src directory
run
make
I've tested this with Java 8 and Java 11