Dependency analysis on package illuminaHumanv3.db

General information

Bioconductor link link
Package version1.26.0
Number of strong dependencies46
Number of all dependencies50
Number of parent packages3
Max heaviness from parent packages1
Total heaviness from parent packages1
Number of parent packages (including Suggests and Enhances)5
Max co-heaviness from parent packages ("org.Hs.eg.db" and "AnnotationDbi")44

Dependency heatmap

In the following dependency heatmap, rows are the parent packages of illuminaHumanv3.db 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 illuminaHumanv3.db.

Adjust heatmap size:
Base packages Other packages Depends Suggests methods utils graphics stats4 stats grDevices tools BiocGenerics Biobase IRanges DBI RSQLite S4Vectors KEGGREST bit64 blob memoise pkgconfig Rcpp plogr httr png Biostrings bit rlang vctrs cachem curl jsonlite mime openssl R6 XVector GenomeInfoDb crayon cli glue fastmap askpass zlibbioc RCurl GenomeInfoDbData sys bitops AnnotationDbi XML xtable 0 0.5 1 Imported methods 0 20 40 Required packages 0 1 2 3 Heaviness from parents methods AnnotationDbi org.Hs.eg.db RUnit annotate In total 46 packages are required directly or indirectly (50) when installing 'illuminaHumanv3.db' (1.26.0) Depends Suggests Base packages that are required Contributed packages that are required Packages that are required for installing 'illuminaHumanv3.db' The whole namespace is imported Package is listed in 'Imports' but namespace is not imported


Dependency table

"Import" information is from the NAMESPACE file of illuminaHumanv3.db.

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 illuminaHumanv3.db: number of required packages that can be reduced if moving parent package to Suggests of illuminaHumanv3.db.

Parent package Field imports importMethods importClasses Required packages Heaviness from parent on illuminaHumanv3.db
org.Hs.eg.db Depends Parent package is listed in Depends of illuminaHumanv3.db but no object from parent package is imported. 45 1
methods Depends The whole set of functions/methods/classes from parent package is imported to the namespace of illuminaHumanv3.db. 0 0
AnnotationDbi Depends The whole set of functions/methods/classes from parent package is imported to the namespace of illuminaHumanv3.db. 44 0
annotate Suggests No object is imported into the namespace of illuminaHumanv3.db. 47 3
RUnit Suggests No object is imported into the namespace of illuminaHumanv3.db. 3 1

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 illuminaHumanv3.db Co-heaviness as Jaccard coeffcient
AnnotationDbi org.Hs.eg.db 44 0.978

Analysis was done with pkgndep.