Method | R package | Categories | Correction for spatial or population structure | Data | # outliers detected (# unique) | Reference |
---|---|---|---|---|---|---|
Linear regression (LM) | LM | Linear model | No | Allele frequencies | 129 (78) | R development Core Team |
Redundancy Analysis (RDA) | vegan | Multivariate method | Yes | Allele frequencies | 11 (0) | Legendre & Legendre 2012 [73] |
Generalized linear spatial mixed models (gINLAnd) | gINLAnd | Mixed model | Yes | Read counts | 7 (0) | Guillot et al. 2013 [49] |
Latent factor mixed models (LFMMs) | LEA | Mixed model | Yes | Read counts | 0 - | Frichot et al. 2013 [50] |
Moran spectral outlier detection (MSOD) | PCNM and adespatial | Multivariate method | Yes | Allele frequencies | 7 (1) | Wagner et al. 2017 [43] |
Principal Component Analysis (PCadapt) | pcadapt | Multivariate method | No | Allele frequencies | 88 (43) | Duforet-Frebourg et al. 2015 [74] |