@@ -22,9 +22,9 @@

 #' # Create list of panels

 #' initial <- c(RowTreePlot(), ColumnTreePlot())

 #' # If RowTreePlot is in initial, check whether rowLinks is defined

-#' initial <- .check_panel(se, initial, "RowTreePlot", rowLinks)

+#' initial <- .check_panel(tse, initial, "RowTreePlot", rowLinks)

 #' # If ColumnTreePlot is in initial, check whether colLinks is defined

-#' initial <- .check_panel(se, initial, "ColumnTreePlot", colLinks)

+#' initial <- .check_panel(tse, initial, "ColumnTreePlot", colLinks)

 #' 

 #' # View filtered list of panels

 #' initial

new file mode 100644

@@ -0,0 +1,20 @@

+citHeader("To cite iSEEtree in publications use:")

+

+citEntry(

+  entry    = "Article",

+  title    = "iSEEtree: interactive explorer for hierarchical data",

+  author   = personList(

+      as.person("Giulio Benedetti"),

+      as.person("Ely Seraidarian"),

+      as.person("Theotime Pralas"),

+      as.person("Akewak Jeba"),

+      as.person("Tuomas Borman"),

+      as.person("Leo Lahti")

+  ),

+  journal  = "arXiv",

+  year     = "2024",

+  url      = "https://arxiv.org/abs/2412.02882",

+  textVersion = paste("Benedetti, G., Seraidarian, E., Pralas, T., Jeba, A.",

+  "Borman, T., & Lahti, L. (2024). iSEEtree: interactive explorer for",

+  "hierarchical data. arXiv. doi: https://doi.org/10.48550/arXiv.2412.02882")

+)

\ No newline at end of file

@@ -7,16 +7,6 @@

   url = {https://www.R-project.org/},

   }

-@misc{benedetti2024iseetree,

-  title={{iSEEtree: interactive explorer for hierarchical data}}, 

-  author={Giulio Benedetti and Ely Seraidarian and Theotime Pralas and Akewak Jeba and Tuomas Borman and Leo Lahti},

-  year={2024},

-  eprint={2412.02882},

-  archivePrefix={arXiv},

-  primaryClass={cs.MS},

-  url={https://arxiv.org/abs/2412.02882}

-}

-

 @article{rue2018isee,

   title={{iSEE: interactive SummarizedExperiment explorer}},

   author={Rue-Albrecht, Kevin and Marini, Federico and Soneson, Charlotte and Lun, Aaron TL},

@@ -33,9 +33,9 @@ tse <- Tengeler2020

 # Create list of panels

 initial <- c(RowTreePlot(), ColumnTreePlot())

 # If RowTreePlot is in initial, check whether rowLinks is defined

-initial <- .check_panel(se, initial, "RowTreePlot", rowLinks)

+initial <- .check_panel(tse, initial, "RowTreePlot", rowLinks)

 # If ColumnTreePlot is in initial, check whether colLinks is defined

-initial <- .check_panel(se, initial, "ColumnTreePlot", colLinks)

+initial <- .check_panel(tse, initial, "ColumnTreePlot", colLinks)

 # View filtered list of panels

 initial

@@ -223,7 +223,6 @@ We hope that iSEEtree will be useful for your research. Please use the following

 information to cite the package and the overall approach. Thank you!

 ```{r citation}

-## Citation info

 citation("iSEEtree")

 ```