Dependency analysis on package pd.mapping50k.hind240

General information

Bioconductor link link
Package version3.12.0
Number of strong dependencies53
Number of all dependencies53
Number of parent packages8
Max heaviness from parent packages4
Total heaviness from parent packages4
Number of parent packages (including Suggests and Enhances)8
Max co-heaviness from parent packages ("oligo" and "oligoClasses")16

Dependency heatmap

In the following dependency heatmap, rows are the parent packages of pd.mapping50k.hind240 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 pd.mapping50k.hind240.

Adjust heatmap size:
Base packages Other packages Depends methods utils stats graphics stats4 grDevices tools grid splines BiocGenerics S4Vectors IRanges XVector GenomeInfoDb crayon zlibbioc RCurl GenomeInfoDbData bitops bit64 blob DBI memoise pkgconfig Rcpp plogr bit rlang vctrs cachem cli glue fastmap Biobase GenomicRanges SummarizedExperiment Biostrings affyio foreach BiocManager RSQLite ff MatrixGenerics Matrix DelayedArray codetools iterators matrixStats lattice oligoClasses affxparser preprocessCore 0 0.5 1 Imported methods 0 20 40 Required packages 0 2 4 Heaviness from parents methods DBI S4Vectors IRanges Biostrings RSQLite oligoClasses oligo In total 53 packages are required directly or indirectly (53) when installing 'pd.mapping50k.hind240' (3.12.0) Depends Base packages that are required Recommended packages that are required Contributed packages that are required Packages that are required for installing 'pd.mapping50k.hind240' Imported functions 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 pd.mapping50k.hind240.

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 pd.mapping50k.hind240: number of required packages that can be reduced if moving parent package to Suggests of pd.mapping50k.hind240.

Parent package Field imports importMethods importClasses Required packages Heaviness from parent on pd.mapping50k.hind240
oligo Depends Parent package is listed in Depends of pd.mapping50k.hind240 but no object from parent package is imported. 52 4
methods Depends Parent package is listed in Depends of pd.mapping50k.hind240 but no object from parent package is imported. 0 0
DBI Depends The whole set of functions/methods/classes from parent package is imported to the namespace of pd.mapping50k.hind240. 1 0
S4Vectors Depends 1 0 0 6 0
IRanges Depends Parent package is listed in Depends of pd.mapping50k.hind240 but no object from parent package is imported. 7 0
Biostrings Depends 1 0 0 17 0
RSQLite Depends The whole set of functions/methods/classes from parent package is imported to the namespace of pd.mapping50k.hind240. 17 0
oligoClasses Depends Parent package is listed in Depends of pd.mapping50k.hind240 but no object from parent package is imported. 48 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 pd.mapping50k.hind240 Co-heaviness as Jaccard coeffcient
oligoClasses oligo 16 0.8

Analysis was done with pkgndep.