O. Francois

A quantitative theory for genomic offset statistics

The paper develops a theoretical framework to interpret genomic offset statistics and validates it using simulations and empirical data on African pearl millet.

Theoretical Analysis of Principal Components in an Umbrella Model of Intraspecific Evolution

The paper analyzes wave-like patterns in PCA of genomic data using an umbrella model of genetic drift, showing they can arise from drift alone and not just spatial structure.

A Spectral Theory for Wright's Inbreeding Coefficients and Related Quantities

This paper establishes a theoretical link between Wright's inbreeding coefficient and PCA, showing they provide equivalent descriptions of population structure.

LEA 3: Factor models in population genetics and ecological genomics with R

The paper introduces new functionalities in the LEA R package for ecological genomics, including genotype imputation, latent factor models, and climate-based genetic offset estimation.

Genome wide association study pinpoints key agronomic QTLs in African rice Oryza glaberrima

This study identifies key agronomic QTLs in African rice Oryza glaberrima through a genome-wide association study, focusing on flowering time, panicle architecture, and virus resistance.

Inference of population genetic structure from temporal samples of DNA

This paper introduces a factor analysis method that corrects for allele frequency drift in temporal DNA samples, applied to study hepatitis C virus evolution and ancient European population structure.

Fast Inference of Individual Admixture Coefficients Using Geographic Data

The paper introduces new algorithms that use geographic data to estimate ancestry proportions and frequencies, showing faster runtime without loss of accuracy.