1 Description

This manual describes Genesis, a program created for scientists to generate PCA (Principal Component Analysis) and structure/admixture graphs from data outputted by common tools such as eigenstrat and the SNPRelate package for PCAs and Admixture and CLUMPP for admixtures.

Genesis was developed with user-friendliness in mind as other tools can be complex to use and lack certain features. All elements of the graphs that would need to be edited can be done so using a Graphical User Interface where the graphs themselves are interactive and different elements can be viewed and changed at the click of the mouse. All this saves the time that scientists would rather be spending doing more important things.

Principal Component Analysis is a mathematical and statistical procedure that is used to analyse genetic data. It takes in a set of genetic data and outputs values (called principal components) that can then be plotted onto a set of axes for visual analysis.

Structure/Admixture mappings are used to analyse populations of mixed-ancestry and determine the ratios of proposed different ancestrys. These ratios can then displayed in stacked bar graphs as structure/admixture graphs.

1.1 Licence

Genesis was written by Robert W Buchmann, and is released under the Affero General Public Licence version 3. Genesis uses the iText Software Corporation’s iText library also released under the Affero General Public Licence.