From 1250ddc8cd454590c404f22907c51ca82cb676e0 Mon Sep 17 00:00:00 2001
From: aduvermy <arnaud.duvermy@ens-lyon.fr>
Date: Tue, 24 Oct 2023 16:21:02 +0200
Subject: [PATCH] update vignettes
---
vignettes/htrfit.Rmd | 8 ++++++++
1 file changed, 8 insertions(+)
diff --git a/vignettes/htrfit.Rmd b/vignettes/htrfit.Rmd
index 3861989..56f5478 100644
--- a/vignettes/htrfit.Rmd
+++ b/vignettes/htrfit.Rmd
@@ -503,6 +503,8 @@ l_tmb <- fitModelParallel(formula = kij ~ varB + (varB | varA),
family = glmmTMB::nbinom2(link = "log"),
log_file = "log.txt",
n.cores = 1)
+## -- output
+l_tmb$gene1
## -- evaluation
resSimu <- simulationReport(mock_data,
list_tmb = l_tmb,
@@ -519,3 +521,9 @@ resSimu$dispersionEvaluation$disp_plot
resSimu$roc_plot
```
+# About mixed model evaluation
+
+**HTRfit** offers a versatile simulation framework capable of fitting various types of models involving mixed effects, thanks to its implementation of **glmmTMB**. By combining the functionalities of `init_variable()` and `add_interaction()`, **HTRfit** enables the simulation of even the most complex experimental designs. However, it's important to note that as of now, HTRfit supports the evaluation of only *Type I* mixed models. In this context, *Type I* models are defined as those that follow the structure: `~ varA + (1 | varB)` or `~ varA + (varA | varB)`. Models not conforming to this specific form cannot be evaluated using **HTRfit's** current implementation. Nonetheless, you are welcome to extend its capabilities by implementing support for additional model types.
+
+
+
--
GitLab