Dependency analysis on package TreeAndLeaf

General information

Bioconductor link link
Package version1.8.0
Number of strong dependencies17
Number of all dependencies90
Number of parent packages3
Max heaviness from parent packages5
Total heaviness from parent packages6
Number of parent packages (including Suggests and Enhances)15
Max co-heaviness from parent packages ("RedeR" and "igraph")4

Dependency heatmap

In the following dependency heatmap, rows are the parent packages of TreeAndLeaf 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 TreeAndLeaf.

Adjust heatmap size:
Base packages Other packages Imports Suggests methods utils stats grDevices graphics grid tools parallel splines datasets magrittr pkgconfig lattice Matrix nlme Rcpp igraph glue rlang R6 digest stringi lifecycle tibble vctrs pillar ellipsis fansi cli crayon utf8 evaluate highr stringr yaml xfun jsonlite scales gtable isoband MASS mgcv withr farver labeling munsell RColorBrewer viridisLite colorspace ape purrr generics tidyselect bslib htmltools jquerylib knitr tinytex sass base64enc fastmap fs rappdirs ggplot2 snow data.table bookdown rmarkdown BiocManager viridis gridExtra aplot dplyr ggfun yulab.utils tidyr tidytree treeio ggplotify patchwork cpp11 lazyeval gridGraphics 0 2 4 6 Imported methods 0 20 40 60 Required packages 0 20 40 Heaviness from parents igraph RedeR ape RColorBrewer RUnit BiocGenerics stringr knitr geneplast dplyr rmarkdown BiocStyle ggplot2 dendextend ggtree In total 17 packages are required directly or indirectly (90) when installing 'TreeAndLeaf' (1.8.0) Imports Suggests Base packages that are required Recommended packages that are required Contributed packages that are required Packages that are required for installing 'TreeAndLeaf' Imported functions


Dependency table

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

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 TreeAndLeaf: number of required packages that can be reduced if moving parent package to Suggests of TreeAndLeaf.

Parent package Field imports importMethods importClasses Required packages Heaviness from parent on TreeAndLeaf
ape Imports 2 0 0 11 5
RedeR Imports 1 0 0 11 1
igraph Imports 6 0 0 10 0
ggtree Suggests No object is imported into the namespace of TreeAndLeaf. 58 44
dendextend Suggests No object is imported into the namespace of TreeAndLeaf. 41 31
ggplot2 Suggests No object is imported into the namespace of TreeAndLeaf. 37 27
BiocStyle Suggests No object is imported into the namespace of TreeAndLeaf. 30 25
rmarkdown Suggests No object is imported into the namespace of TreeAndLeaf. 27 22
dplyr Suggests No object is imported into the namespace of TreeAndLeaf. 20 16
knitr Suggests No object is imported into the namespace of TreeAndLeaf. 12 8
stringr Suggests No object is imported into the namespace of TreeAndLeaf. 7 3
geneplast Suggests No object is imported into the namespace of TreeAndLeaf. 18 3
RColorBrewer Suggests No object is imported into the namespace of TreeAndLeaf. 0 1
RUnit Suggests No object is imported into the namespace of TreeAndLeaf. 3 1
BiocGenerics Suggests No object is imported into the namespace of TreeAndLeaf. 4 1

Analysis was done with pkgndep.