Functions to calculate hazard and survival function of Multi-Stage Clonal Expansion Models used in cancer epidemiology. For the Two-Stage Clonal Expansion Model an exact solution is implemented assuming piecewise constant parameters. Numerical solutions are provided for its extensions.

Create native charts for 'Microsoft PowerPoint' and 'Microsoft Word' documents. 
 These can then be edited and annotated. Functions are provided to let users create charts, modify 
 and format their content. The chart's underlying data is automatically saved within the 
 'Word' document or 'PowerPoint' presentation. It extends package 'officer' that does 
 not contain any feature for 'Microsoft' native charts production.

Functions to classify mass spectra in known categories, and to determine discriminant mass-to-charge values. It includes easy-to-use functions for preprocessing mass spectra, functions to determine discriminant mass-to-charge values (m/z) from a library of mass spectra corresponding to different categories, and functions to predict the category (species, phenotypes, etc.) associated to a mass spectrum from a list of selected mass-to-charge values. If you use this package in your research, please cite the associated publication (<doi:10.1016/j.eswa.2025.128796>). For a comprehensive guide, additional applications, and detailed examples of using this package, please visit our GitHub repository (<https://github.com/agodmer/MSclassifR_examples>).

Model based clustering using 
    the multivariate multiple Scaled t (MST) and multivariate multiple 
    scaled contaminated normal (MSCN) distributions. The MST is an 
    extension of the multivariate Student-t distribution to include 
    flexible tail behaviors, Forbes, F. & Wraith, D. (2014) <doi:10.1007/s11222-013-9414-4>. The MSCN represents a  heavy-tailed
    generalization of the multivariate normal (MN) distribution to
    model elliptical contoured scatters in the presence of mild outliers
    (also referred to as "bad" points) and automatically detect bad points, Punzo, A. & Tortora, C. (2021) <doi:10.1177/1471082X19890935>.