Dependency analysis on package ggtreeExtra

General information

Bioconductor link link
Package version1.6.0
Number of strong dependencies60
Number of all dependencies95
Number of parent packages7
Max heaviness from parent packages8
Total heaviness from parent packages9
Number of parent packages (including Suggests and Enhances)16
Max co-heaviness from parent packages ("ggtree" and "tidytree")13

Dependency heatmap

In the following dependency heatmap, rows are the parent packages of ggtreeExtra and columns are the dependency packages that each parent package brings in. On the right side of the heatmap, there are three barplot annotations: 1. number of imported functions/S4 methods/S4 classes from parent packages; 2. number of dependency packages from each parent package; 3. heaviness of each parent package on ggtreeExtra.

Adjust heatmap size:
Base packages Other packages Imports Suggests utils stats methods grDevices graphics tools grid splines parallel glue rlang magrittr R6 lifecycle ellipsis fansi vctrs cli crayon utf8 tibble pillar pkgconfig digest nlme lattice withr gtable isoband MASS mgcv scales Matrix farver labeling munsell RColorBrewer viridisLite colorspace jsonlite ggplot2 ape dplyr purrr yulab.utils tidyr Rcpp generics tidyselect cpp11 lazyeval tidytree aplot ggfun treeio ggplotify patchwork gridGraphics xfun evaluate highr stringr yaml stringi bslib htmltools jquerylib knitr tinytex sass base64enc fastmap fs rappdirs mime rmarkdown brio callr desc pkgload praise processx ps waldo rprojroot rstudioapi diffobj rematch2 gridExtra 0 5 10 Imported methods 0 20 40 60 Required packages 0 5 10 15 Heaviness from parents utils stats rlang tidytree ggplot2 ggnewscale ggtree markdown knitr pillar rmarkdown prettydoc treeio testthat patchwork ggstar In total 60 packages are required directly or indirectly (95) when installing 'ggtreeExtra' (1.6.0) Imports Suggests Base packages that are required Recommended packages that are required Contributed packages that are required Packages that are required for installing 'ggtreeExtra' Imported functions


Dependency table

"Import" information is from the NAMESPACE file of ggtreeExtra.

imports: number of imported functions/objects; importMethods: number of imported S4 methods; importClasses: number of imported S4 classes.

Required packages: number of strong dependency packages for each of the parent package (or in other words, number of dependency packages the parent package brings in).

Heaviness from parent on ggtreeExtra: number of required packages that can be reduced if moving parent package to Suggests of ggtreeExtra.

Parent package Field imports importMethods importClasses Required packages Heaviness from parent on ggtreeExtra
ggtree Imports 2 0 0 58 8
ggnewscale Imports 1 0 0 38 1
utils Imports 3 0 0 0 0
stats Imports 2 0 0 0 0
rlang Imports 7 0 0 1 0
tidytree Imports 1 0 0 34 0
ggplot2 Imports 12 0 0 37 0
prettydoc Suggests No object is imported into the namespace of ggtreeExtra. 28 18
rmarkdown Suggests No object is imported into the namespace of ggtreeExtra. 27 17
testthat Suggests No object is imported into the namespace of ggtreeExtra. 36 14
knitr Suggests No object is imported into the namespace of ggtreeExtra. 12 7
markdown Suggests No object is imported into the namespace of ggtreeExtra. 5 3
ggstar Suggests No object is imported into the namespace of ggtreeExtra. 39 2
pillar Suggests No object is imported into the namespace of ggtreeExtra. 12 0
treeio Suggests No object is imported into the namespace of ggtreeExtra. 36 0
patchwork Suggests No object is imported into the namespace of ggtreeExtra. 38 0

The following table lists pairs of parent packages with co-heaviness larger than 10. The co-heaviness measures the number of additional dependencies that two parent packages simultaneously import and are only imported by the two parents.

Note the co-heaviness from parents can be always easily observed in the dependency heatmap.

Parent 1 Parent 2 Co-heaviness on ggtreeExtra Co-heaviness as Jaccard coeffcient
tidytree ggtree 13 0.619

Analysis was done with pkgndep.