Session content

Monday – Collecting datasets - Classes from 2 to 8 pm Berlin time

Session 1- Introduction

-          Overview of the course program

-          Introduction on Seascape Genomics

-          Examples

Session 2 - Datasets

-          Downloading environmental data

-          Exploring genetic/genomic datasets

 

Tuesday – Playing with environmental datasets - Classes from 2 to 8 pm Berlin time

Session 3- Characterize seascape environmental conditions

-          GIS basics and R basics

-          Main marine environmental databases

-          How to handle missing data



Session 4- Characterize seascape structure and distances -

-          Environmental variation among samples

-          Classic spatial analyses (Euclidian distances, In-water distances)

-          Bathymetric analyses or least cost raster (gflow)

 

Wednesday – Analyse connectivity in marine populations- Classes from 09:00 to 17:00

Session 5 - Filtering genetic/genomic dataset

-          Sampling design and data filtering

-          Outlier detection without a priori (PCAdapt – OUTFLANK)



Session 6 – Investigating population structure in genetic/genomic dataset

-          Hierarchical clustering (Admixture, Structure)

-          Fst, DPCA

 

Thursday – Analyse adaptation in marine populations- Classes from 2 to 8 pm Berlin time

Session 7 – Environmental Association Analyses

-          Overview of the Envrionmental association programs available (SamBada, LFMM, Bayescenv, RDA)

-          Correcting for population structure in environmental association analyses

 

Session 8 - Statistical Analysis

-          db-MEM versus AEM vectors

-          Multivariate analyses (PCA, sPCA, RDA)

 

Friday – Interpreting the results and conclusions  -Classes from 2 to 8 pm Berlin time

Session 9- Interpreting the seascape genomics results

-          Marine ecology and biology

-          Bioinformatics artefact

 

Session 10-Conclusion

-          Take home messages

-          Question time