Part 2 - Isolation by Distance and Fine-scale Spatial Genetic Structure

This suit of scripts were developed based on LanGen_pipeline

For a similar pipeline without using VCFtools v.0.1.16, check our Populational Genomics Pipeline

 

Scripts:

2.1_MANTEL_TESTS.R: Mantel tests for classical Isolation by Distance (IBD) tests

2.2_PROCRUSTES.R2: Procrustes Analyses - Association between Geography and Genetics matrices

2.3_LOESS.R: LOESS model to indicate where individuals are more related to each other in the study area than the expected by chance

2.4_sPCA.R: Spatial PCA - Compare allelic frequency of individuals to their neighbours and plot it in a map

2.5_EEMS.R_: EEMS - Spatial population structure with EEMS - Estimated Effective Migration Surface

 

INITIAL PAGE

PART 1 - GENETIC STRUCTURE AND GENETIC DIVERSITY

PART 3 - ISOLATION BY RESISTANCE USING MLPE MODELS

PART 4 - LOCAL ADAPTATION ANALYSES - IDENTIFICATION OF CANDIDATES LOCI UNDER SELECTION