diff --git a/DESCRIPTION b/DESCRIPTION
index 47dd4e5b..675719d7 100644
--- a/DESCRIPTION
+++ b/DESCRIPTION
@@ -1,7 +1,7 @@
 Package: OMA
 Title: Orchestrating Microbiome Analysis with Bioconductor
-Version: 0.99.5
-Date: 2026-03-26
+Version: 0.99.6
+Date: 2026-04-20
 Authors@R:
     c(
   person(given = "Tuomas", family = "Borman", role = c("aut", "cre"), email = "tuomas.v.borman@utu.fi", comment = c(ORCID = "0000-0002-8563-8884")),
diff --git a/inst/pages/differential_abundance.qmd b/inst/pages/differential_abundance.qmd
index ce29e849..45083c2b 100644
--- a/inst/pages/differential_abundance.qmd
+++ b/inst/pages/differential_abundance.qmd
@@ -199,11 +199,6 @@ folder for some output files. Lastly, we prevent `Maaslin2()` to create certain
 plots. (Note that `Maaslin2()` prints a lot of some output
 which is suppressed here for convenience.)
 
-```{r}
-#| label: disable_chunks
-knitr::opts_chunk$set(eval = FALSE)
-```
-
 ```{r}
 #| label: run_daa_basic
 #| results: hide
@@ -558,11 +553,6 @@ cohort).
 Note that a similar plot could also be used to illustrate a possible confounding
 effect.
 
-```{r}
-#| label: enable_chunks
-knitr::opts_chunk$set(eval = TRUE)
-```
-
 ### Differential prevalence analysis (DPA) {#sec-DPA}
 
 We show here how to perform DPA with logistic regression. We show the case
diff --git a/inst/pages/phyloseq_cheatsheet.qmd b/inst/pages/phyloseq_cheatsheet.qmd
index 94fef877..4fe969d9 100644
--- a/inst/pages/phyloseq_cheatsheet.qmd
+++ b/inst/pages/phyloseq_cheatsheet.qmd
@@ -1,12 +1,5 @@
 # phyloseq vs TreeSE cheatsheet {#sec-phyloseq_cheatsheet}
 
-```{r}
-#| label: setup
-#| echo: false
-
-knitr::opts_chunk$set(eval = TRUE, warning = FALSE, message = FALSE)
-```
-
 This section has a cheatsheet for translating common functions in
 `r BiocStyle::Biocpkg("phyloseq")` to
 `r BiocStyle::Biocpkg("TreeSummarizedExperiment")` (`TreeSE`) /