In vbonhomme/Momocs: Morphometrics using R

knitr::opts_chunk$set(
  collapse = TRUE,
  comment = "#>",
  fig.path = "README-"
)

Momocs

News

• I'm still looking for funding to develop MomX. If you have any idea, please email me <[e-mail]>
• I'm available for consulting, training and collaboration, worldwide.
• Momocs is back on CRAN and no longer relies on the retired rgeos dependency
• The tutorial/introduction is back! Download it there**

Installation

The last released version can be installed from CRAN with:

install.packages("Momocs")

But I recommend using (and only support) the development version from GitHub with:

# install.packages("devtools")
devtools::install_github("MomX/Momocs")

Example

This is a basic example of a complete analysis doing: inspection, normalization of raw outlines, elliptical Fourier transforms, dimmensionality reduction and classification, using a single line.

library(Momocs)

devtools::load_all()

options(Momocs_verbose = FALSE)

hearts %T>%                    # A toy dataset
  stack() %>%                  # Take a family picture of raw outlines
  fgProcrustes() %>%           # Full generalized Procrustes alignment
  coo_slide(ldk = 2) %T>%      # Redefine a robust 1st point between the cheeks
  stack() %>%                  # Another picture of aligned outlines
  efourier(6, norm=FALSE) %>%  # Elliptical Fourier Transforms
  PCA() %T>%                   # Principal Component Analysis
  plot_PCA(~aut) %>%           # A PC1:2 plot
  LDA(~aut) %>%                # Linear Discriminant Analysis
  plot_CV()                    # And the confusion matrix after leave one out cross validation

vbonhomme/Momocs documentation built on Nov. 13, 2023, 8:54 p.m.