Custom scripts used to analyze global oat genetic diversity.

Readme:

10.5281/zenodo.14976680
This file contains custom scripts used in the manuscript "Global genomic population structure of wild and cultivated oat reveals signatures of chromosome rearrangements "

The Rscript below gives example scripts and packages used for five key analyses in the manuscript.
I.                    Population structure using sNMF and adegenet
II.                  Lostruct Analysis to detect inversions. In addition, the run_summary.html summarizes the run used in this manuscript.
III.                Lostruct downstream analysis to detect haplotypes
IV.                PCAdapat analysis to detect outlier (adaptation related) genomic regions
V.                  Mantel Test: Genetic vs Geographic Distances