Detect and Remove Outliers in Phylogenomics Datasets

Analyzis and filtering of phylogenomics datasets. It takes an input either a collection of gene trees (then transformed to matrices) or directly a collection of gene matrices and performs an iterative process to identify what species in what genes are outliers, and whose elimination significantly improves the concordance between the input matrices. The methods builds upon the Distatis approach (Abdi et al. (2005) ), a generalization of classical multidimensional scaling to multiple distance matrices.


Reference manual

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install.packages("phylter")

0.9.12 by Aurélie Siberchicot, a year ago


https://github.com/damiendevienne/phylter


Report a bug at https://github.com/damiendevienne/phylter/issues


Browse source code at https://github.com/cran/phylter


Authors: Damien M. de Vienne [aut] (ORCID: , Stéphane Dray [aut] , Théo Tricou [aut] , Aurélie Siberchicot [ctb, cre] (ORCID:


Documentation:   PDF Manual  


GPL (>= 2) license


Imports ape, ggplot2, reshape2, Rfast, RSpectra, stats, utils

Suggests knitr, rmarkdown

Linking to RcppEigen, Rcpp, RcppArmadillo


See at CRAN