# Permutation Tests for Time Series Data

## Documentation for package ‘permutes’ version 2.8

- DESCRIPTION file.
- User guides, package vignettes and other documentation.

## Help Pages

clusterperm.glm | Cluster-based permutation tests for time series data, based on generalized linear models or other 'buildmer' models. This is an alias for 'clusterperm.lm' provided for discoverability.
clusterperm.glmer | Cluster-based permutation tests for time series data, based on generalized linear mixed-effects models or other 'buildmer' models. This is an alias for 'clusterperm.lmer' provided for discoverability.
clusterperm.glmmTMB | Cluster-based permutation tests for time series data, based on 'buildglmmTMB'.
clusterperm.lm | Cluster-based permutation tests for time series data, based on mixed-effects models or other 'buildmer' models. This is an alias for 'clusterperm.lmer', except that random effects are explicily disallowed.
clusterperm.lmer | Cluster-based permutation tests for time series data, based on mixed-effects models or other 'buildmer' models.
MMN | ERP data from Jager (in prep.). See the vignettes for details.
perm.glm | A general permutation test for mixed-effects models or other 'buildmer' models. This is an alias for 'perm.lm' provided for discoverability.
perm.glmer | A general permutation test for mixed-effects models or other 'buildmer' models. This is an alias for 'perm.lmer' provided for discoverability.
perm.glmmTMB | A general permutation test for 'glmmTMB' models.
perm.lm | A general permutation test for mixed-effects models or other 'buildmer' models. This is an alias for 'perm.lmer', except that random effects are explicily disallowed.
perm.lmer | A general permutation test for mixed-effects models or other 'buildmer' models.
permu.test | Permutation tests for time series data, based on classic linear regression or ANOVA This is a legacy function that is primarily provided for backward compatibility. You should probably use 'perm.lm' or 'perm.lmer' instead. 'permu.test' is the only function to support multivariate responses, although multivariate data can trivially be recoded into a univariate model. 'permu.test' does not support random effects or corrected p-values (e.g. the cluster mass test), which are supported by 'permutelm'.
plot.permutes | Create a heatmap of the results of cluster-based permutation testing.