_pkgdown.yml

destination: docs
development:
  mode: unreleased


reference:
- title: Main Functions
  desc: >
    The most important functions to analyze mass spectrometry data with
    lots of missing values
  contents:
    - median_normalization
    - proDA
    - '`dist_approx,proDAFit-method`'
    - test_diff

- title: Accessor methods
  desc: Methods to access values of the fit
  contents:
    - accessor_methods
    - .DollarNames.proDAFit

- title: Quick start functions
  desc: ~
  contents:
    - '`pd_row_t_test`'
    - '`generate_synthetic_data`'

- title: Low-level statistics functions
  desc: ~
  contents:
    - pd_lm
    - invprobit
    - '`predict,proDAFit-method`'


- title: Utility function
  desc: ~
  contents:
    - mply_dbl

- title: Class and Package Information
  desc: ~
  contents:
    - '`proDAFit-class`'
    - proDA_package

- title: Generic functions
  desc: Function definitions for S4 Generics
  contents:
    - abundances
    - coefficients
    - coefficient_variance_matrices
    - convergence
    - dist_approx
    - feature_parameters
    - hyper_parameters
    - reference_level
    - result_names

- title: All functions
  desc: ~
  contents:
  - '`abundances`'
  - '`accessor_methods`'
  - '`.DollarNames.proDAFit`'
  - '`coefficients`'
  - '`coefficient_variance_matrices`'
  - '`convergence`'
  - '`dist_approx,proDAFit-method`'
  - '`dist_approx`'
  - '`feature_parameters`'
  - '`generate_synthetic_data`'
  - '`hyper_parameters`'
  - '`invprobit`'
  - '`median_normalization`'
  - '`mply_dbl`'
  - '`pd_lm`'
  - '`pd_row_t_test`'
  - '`predict,proDAFit-method`'
  - '`proDA`'
  - '`proDAFit-class`'
  - '`proDA_package`'
  - '`reference_level`'
  - '`test_diff`'