Dependency analysis on package hgu95av2.db

General information

Bioconductor link link
Package version3.13.0
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)6
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 hgu95av2.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 hgu95av2.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 DBI RUnit annotate In total 46 packages are required directly or indirectly (50) when installing 'hgu95av2.db' (3.13.0) Depends Suggests Base packages that are required Contributed packages that are required Packages that are required for installing 'hgu95av2.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 hgu95av2.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 hgu95av2.db: number of required packages that can be reduced if moving parent package to Suggests of hgu95av2.db.

Parent package Field imports importMethods importClasses Required packages Heaviness from parent on hgu95av2.db
org.Hs.eg.db Depends Parent package is listed in Depends of hgu95av2.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 hgu95av2.db. 0 0
AnnotationDbi Depends The whole set of functions/methods/classes from parent package is imported to the namespace of hgu95av2.db. 44 0
annotate Suggests No object is imported into the namespace of hgu95av2.db. 47 3
RUnit Suggests No object is imported into the namespace of hgu95av2.db. 3 1
DBI Suggests No object is imported into the namespace of hgu95av2.db. 1 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 hgu95av2.db Co-heaviness as Jaccard coeffcient
AnnotationDbi org.Hs.eg.db 44 0.978

Analysis was done with pkgndep.