Overcoming the Spurious Groups Problem in Between-Group PCA - Archive ouverte HAL Access content directly
Journal Articles Evolutionary Biology Year : 2021

Overcoming the Spurious Groups Problem in Between-Group PCA

Abstract

Several papers have recently raised the occurrence of some problems with between-group Principal Component Analysis (bgPCA). This method inflates the differences between the groups, and can even display completely artificial differences when none exist, for example when applied to random numbers tables with many variables (columns) and few individuals (rows). Lately, cross-validation has been proposed as a way to circumvent this problem. Here we present some tools and several functions of the ade4 package for the R statistical software to compute a bgPCA, test the presence of statistically significant groups, perform a cross-validation of this analysis and compute associated statistics. We also describe how to use these functions to avoid running into the spurious groups problem. Several examples, including a real data set and random numbers tables, are used to validate this approach in var
Fichier principal
Vignette du fichier
ThioulouseEB2021.pdf (3.2 Mo) Télécharger le fichier
Origin Files produced by the author(s)

Dates and versions

hal-03348141 , version 1 (17-09-2021)

Identifiers

Cite

Jean Thioulouse, Sabrina Renaud, Anne-Béatrice Dufour, Stéphane Dray. Overcoming the Spurious Groups Problem in Between-Group PCA. Evolutionary Biology, 2021, ⟨10.1007/s11692-021-09550-0⟩. ⟨hal-03348141⟩
231 View
252 Download

Altmetric

Share

Gmail Mastodon Facebook X LinkedIn More