Run the following code to install the development version:

```
install.packages("piecewiseSEM")
```

See our website at (piecewiseSEM)[http://jslefche.github.io/piecewiseSEM/]

There is an online resource available for SEM, including `piecewiseSEM`

and `lavaan`

, available (here)[https://jslefche.github.io/sem_book/]

This version is a major update to the `piecewiseSEM`

package that uses a completely revised syntax that better reproduces the base R syntax and output. It is highly recommended that consult `vignette("piecewiseSEM")`

even if you have used the package before as it documents the many changes.

It also incorporates new functionality in the form of coefficient standardization and updated methods for R^2 for mixed models.

Currently supported model classes: `lm, glm, gls, pgls, sarlm, lme, glmmPQL, lmerMod, merModLmerTest, glmerMod`

Frequently, we get requests to add new model classes. We'd like to accommodate wherever we can! Currently, to add a new model class, you will need to update the following functions in the following files:
- In `coefs.R`

- `getCoefficients()`

- will need a method to generate a standardized coefficient table from your class
- `GetSDy()`

- will need a method to get the proper SD of y, particularly for non-Gaussian error families
- In `helpers.R`

- `GetSingleData()`

- need a method to get a data frame from your class type
- `GetOLRE()`

- if your class has random effects, will need a method to get observation level random effects
- `nObs()`

- if your class has a non-standard way to get the number of observations, will need it here.
- You might need to write a `all.vars`

method for you class. See `all.vars.merMod()`

as an example.
- In `psem.R`

- `evaluateClasses()`

- so we know that this class can work in `piecewiseSEM`

- In `rsquared.R`

- `rsquared()`

- what function should be used to get the rsquared for your model class?
- Will need an `rsquared.youclass()`

method to get the R^2

```
# Install development branch from github
library(devtools)
install_github("jslefche/[email protected]", build_vignette = TRUE)
# Load library
library(piecewiseSEM)
# Read vignette
vignette("piecewiseSEM")
# Create fake data
set.seed(1)
data <- data.frame(
x = runif(100),
y1 = runif(100),
y2 = rpois(100, 1),
y3 = runif(100)
)
# Store in SEM list
modelList <- psem(
lm(y1 ~ x, data),
glm(y2 ~ x, "poisson", data),
lm(y3 ~ y1 + y2, data),
data
)
# Run summary
summary(modelList)
# Address conflict using conserve = T
summary(modelList, conserve = T)
# Address conflict using direction = c()
summary(modelList, direction = c("y2 <- y1"))
# Address conflict using correlated errors
modelList2 <- update(modelList, y2 %~~% y1)
summary(modelList2)
```

jslefche/piecewiseSEM documentation built on Dec. 10, 2019, 9:38 p.m.

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