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4 changes: 2 additions & 2 deletions index.Rmd
Original file line number Diff line number Diff line change
Expand Up @@ -164,7 +164,7 @@ simulate_population(

Each of these will be covered in more detail in the following sections. Briefly, `n` and `data_structure` refer to the size and structure of the data being simulated - `data_structure` is covered in more detail in Section \@ref(hierarchical). `parameters` is a list of parameters to be used in the simulation and is described in detail in Section \@ref(linearmod). `n_response` refers the number of response variable to be simulated and is covered in detail in the section on multivariate models (Section \@ref(multivariate)). `response_names` controls what the simulated response variables are named, and is described in Sections \@ref(linearmod) and \@ref(multivariate). `family` and `link` refer to simulating non Gaussian response variables and are covered in Section \@ref(nonGaussian). `model` allows for the specification of more complex models and is covered in Section \@ref(modeleq). `known_predictors` allows for existing data to be incorporated into the simulations and is covered in \@ref(knownpreds).

`pedigree` and `pedigree_type` relate to simulating genetic effects and are covered in Section \@ref(animal), `phylogeny` and `phylogeny_type`, relate to simulating phylogenetic effects and are covered in Section \@ref(phylogenetic) and `cov_str` relates to simulating a general covariance structure and is covered in multiple sections, including \@ref(animal), \@ref(phylogenetic), \@ref(temporalauto) and \@ref(spatialauto).
`pedigree` and `pedigree_type` relate to simulating genetic effects and are covered in Section \@ref(animal), `phylogeny` and `phylogeny_type` relate to simulating phylogenetic effects and are covered in Section \@ref(phylogenetic) and `cov_str` relates to simulating a general covariance structure and is covered in multiple sections, including \@ref(animal), \@ref(phylogenetic), \@ref(temporalauto) and \@ref(spatialauto).

`sample_type` and `sample_param` relate to different sampling methods and are covered in Section \@ref(sampling)

Expand Down Expand Up @@ -211,7 +211,7 @@ Capital letters (e.g. $X$) denote matrices

### Notation for a linear mixed model {-}

There are several ways to write out an equation for a linear model. First we can write out all the different variables:
There are several ways to write out an equation for a linear model. First, we can write out all the different variables:

$y_i = \beta_0 + \beta_1 x_{1,i} + \beta_2 x_{2,i} + \beta_3 x_{3,i} + \epsilon_i$

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