Dependency analysis on package TreeSim

General information

CRAN link link
Package version2.4
Number of strong dependencies37
Number of all dependencies37
Number of parent packages2
Max heaviness from parent packages25
Total heaviness from parent packages25
Number of parent packages (including Suggests and Enhances)2
Max co-heaviness from parent packages ("geiger" and "ape")12

Dependency heatmap

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

Adjust heatmap size:
Base packages Other packages Depends graphics methods stats tools utils parallel grid grDevices nlme lattice Rcpp ape MASS mvtnorm subplex deSolve digest coda ncbit colorspace phytools maps clusterGeneration combinat expm mnormt numDeriv phangorn plotrix scatterplot3d Matrix fastmatch igraph quadprog magrittr pkgconfig 0 0.5 1 Imported methods 0 10 20 30 Required packages 0 10 20 Heaviness from parents ape geiger In total 37 packages are required directly or indirectly (37) when installing 'TreeSim' (2.4) Depends Base packages that are required Recommended packages that are required Contributed packages that are required Packages that are required for installing 'TreeSim' Imported functions The whole namespace is imported


Dependency table

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

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

Parent package Field imports importMethods importClasses Required packages Heaviness from parent on TreeSim
geiger Depends 1 0 0 36 25
ape Depends The whole set of functions/methods/classes from parent package is imported to the namespace of TreeSim. 11 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 TreeSim Co-heaviness as Jaccard coeffcient
ape geiger 12 0.324

Analysis was done with pkgndep.