dcgerard/arenosaploidy

Population genomics of ploidy-variable A. arenosa

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Introduction

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

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Data Preparation

See Mapping_README.txt for description of scripts used in the creation of a master VCF from the raw sequencing reads.

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Analysis

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.

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