This repository contains a collection of scripts used in the analysis for the manuscript:
Pervasive population genomic consequences of genome duplication in Arabidopsis arenosa (in prep)
Author list:
Patrick Monnahan1,, Filip Kolář2,3,4,, Pierre Baduel1,*, Christian Sailer1, Jordan Koch1, Robert Horvath5, Benjamin Laenen5, Roswitha Schmickl4,2, Pirita Paajanen1, Gabriela Fuxová2, Magdalena Holcová2, Brian Arnold6, Cara Weismann6, Karol Marhold2, Tanja Slotte5, Kirsten Bomblies1, and Levi Yant1
See Mapping_README.txt for description of scripts used in the creation of a master VCF from the raw sequencing reads.
Scripts used in data analysis are contained in two repositories. Click here for the primary pipeline and here for scripts associated with the LD analysis.