Dependency analysis on package affyPLM

General information

Bioconductor link link
Package version1.72.0
Number of strong dependencies25
Number of all dependencies27
Number of parent packages10
Max heaviness from parent packages13
Total heaviness from parent packages13
Number of parent packages (including Suggests and Enhances)12
Max co-heaviness from parent packages ("gcrma" and "affy")3

Dependency heatmap

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

Adjust heatmap size:
Base packages Other packages Depends Imports Suggests stats methods utils graphics grDevices splines tools stats4 BiocGenerics Biobase affyio BiocManager preprocessCore zlibbioc affy XVector Biostrings S4Vectors IRanges GenomeInfoDb crayon RCurl GenomeInfoDbData bitops 0 10 20 Imported methods 0 10 20 Required packages 0 5 10 Heaviness from parents stats preprocessCore BiocGenerics Biobase affy gcrma zlibbioc graphics grDevices methods MASS affydata In total 25 packages are required directly or indirectly (27) when installing 'affyPLM' (1.72.0) Depends Imports Suggests Base packages that are required Contributed packages that are required Packages that are required for installing 'affyPLM' Imported functions Imported S4 methods Imported S4 classes The whole namespace is imported


Dependency table

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

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

Parent package Field imports importMethods importClasses Required packages Heaviness from parent on affyPLM
gcrma Depends 1 0 0 24 13
stats Depends 7 0 0 0 0
preprocessCore Depends 2 0 0 1 0
BiocGenerics Depends 3 16 0 4 0
Biobase Depends 1 13 3 5 0
affy Depends 12 15 0 11 0
zlibbioc Imports The whole set of functions/methods/classes from parent package is imported to the namespace of affyPLM. 0 0
graphics Imports 8 0 0 0 0
grDevices Imports 4 0 0 0 0
methods Imports 0 1 0 0 0
MASS Suggests No object is imported into the namespace of affyPLM. 5 1
affydata Suggests No object is imported into the namespace of affyPLM. 12 1

Analysis was done with pkgndep.