snpArcher
A reproducible workflow optimized for nonmodel organisms and comparisons across datasets, built on the Snakemake workflow management system. It provides a streamlined approach to dataset acquisition, variant calling, quality control, and downstream analysis.
Link to paper | Link to github | Link to doc
wingen
R package to generate continuous maps of genetic diversity using moving windows with options for rarefaction, interpolation, and masking.
algatr
A Landscape Genomic Analysis Toolkit in R (algatr) was built to provide researchers with a step-by-step, start-to-finish pipeline to perform various landscape genomics methods with their data.