diff --git a/DESCRIPTION b/DESCRIPTION index be28a5b..c1dab23 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -22,3 +22,4 @@ Suggests: tidyverse, treeio VignetteBuilder: knitr +Year: 2024 diff --git a/docs/index.Rmd b/docs/index.Rmd index 59345de..5c84a21 100644 --- a/docs/index.Rmd +++ b/docs/index.Rmd @@ -81,9 +81,15 @@ gg ### Package Utilization -This package will utilize: 1. Finding and clustering the monophylectic groups in the tree 2. Add the parameter of the clusters: `bootstrap_treshold`, `data_range`, and `samearea` 3. Keep the maximum monophylectic groups in the cluster identify +This part of package, `genclus` will utilize: -the `bootstrap_treshold` is the minimum bootstrap value to be considered as a cluster. The `data_range` is the range of the days to be considered as a cluster. The `samearea` is the boolean value to consider the same area as a cluster. +1. Finding and clustering the monophylectic groups in the tree + +2. Add the parameter of the clusters: `bootstrap_treshold`, `data_range`, and `samearea` + +3. Keep the maximum monophylectic groups in the cluster identify + +The `bootstrap_treshold` is the minimum bootstrap value to be considered as a cluster. The `data_range` is the range of the days to be considered as a cluster. The `samearea` is the boolean value to consider the same area as a cluster. ```{r} res <- genclus(tree, metat, bootstrap_threshold = 80, date_range = 30, samearea = TRUE) diff --git a/docs/index.html b/docs/index.html index 0e4d634..06e6c55 100644 --- a/docs/index.html +++ b/docs/index.html @@ -416,12 +416,17 @@
This package will utilize: 1. Finding and clustering the -monophylectic groups in the tree 2. Add the parameter of the clusters: +
This part of package, genclus
will utilize:
Finding and clustering the monophylectic groups in the +tree
Add the parameter of the clusters:
bootstrap_treshold
, data_range
, and
-samearea
3. Keep the maximum monophylectic groups in the
-cluster identify
the bootstrap_treshold
is the minimum bootstrap value to
+samearea
Keep the maximum monophylectic groups in the cluster +identify
The bootstrap_treshold
is the minimum bootstrap value to
be considered as a cluster. The data_range
is the range of
the days to be considered as a cluster. The samearea
is the
boolean value to consider the same area as a cluster.