up

microbiome · Nov 4, 2024 · 3344b54 · 3344b54
1 parent 2e22e00
commit 3344b54
Show file tree

Hide file tree

Showing 2 changed files with 5 additions and 4 deletions.
diff --git a/vignettes/articles/minimalgut.Rmd b/vignettes/articles/minimalgut.Rmd
@@ -132,7 +132,7 @@ tse <- addStepwiseDivergence(
     method = "bray",
     group = "StudyIdentifier",
     time.interval = 1,
-    time.col = "Time_hr_num",
+    time.col = "Time.hr",
     name = "divergence_from_previous_step",
     name.time = "time_from_previous_step"
     )

diff --git a/vignettes/miaTime.Rmd b/vignettes/miaTime.Rmd
@@ -73,7 +73,8 @@ comparing them to the first time point.
 data(hitchip1006)
 tse <- hitchip1006
 
-res <- getBaselineDivergence(tse, group = "sample", name = "baseline")
+res <- getBaselineDivergence(
+    tse, time.col = "time", group = "sample", name = "baseline")
 res |> head()
 ```
 
@@ -86,13 +87,13 @@ the same subject.
 ```{r}
 #| label: time_divergence
 
-tse <- addStepwiseDivergence(tse)
+tse <- addStepwiseDivergence(tse, time.col = "time")
 colData(tse)
 ```
 
 ## Visualize time series
 
-We can visualile time series data with `r BiocStyle::Biocpkg("miaViz")`. Below,
+We can visualize time series data with `r BiocStyle::Biocpkg("miaViz")`. Below,
 we visualize 2 most abundant taxa.
 
 ```{r}