Dependency analysis on package annotate

General information

Bioconductor link link
Package version1.74.0
Number of strong dependencies47
Number of all dependencies69
Number of parent packages11
Max heaviness from parent packages29
Total heaviness from parent packages31
Number of parent packages (including Suggests and Enhances)24
Max co-heaviness from parent packages ("httr" and "AnnotationDbi")9

Dependency heatmap

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

Adjust heatmap size:
Base packages Other packages Depends Imports Suggests methods utils stats graphics stats4 tools grDevices grid tcltk splines BiocGenerics S4Vectors IRanges curl jsonlite mime openssl R6 XVector GenomeInfoDb crayon askpass zlibbioc RCurl GenomeInfoDbData sys bitops Biobase DBI RSQLite KEGGREST bit64 blob memoise pkgconfig Rcpp plogr httr png Biostrings bit rlang vctrs cachem cli glue fastmap AnnotationDbi widgetTools DynDoc graph org.Hs.eg.db org.Rn.eg.db annotate survival XML xtable Matrix lattice 0 5 10 15 Imported methods 0 20 40 Required packages 0 10 20 30 Heaviness from parents XML AnnotationDbi graphics utils stats methods DBI xtable BiocGenerics Biobase httr humanCHRLOC RUnit tkWidgets IRanges Rgraphviz Biostrings rae230aprobe GO.db org.Hs.eg.db org.Mm.eg.db hgu95av2.db rae230a.db genefilter In total 47 packages are required directly or indirectly (69) when installing 'annotate' (1.74.0) Depends Imports Suggests Base packages that are required Recommended packages that are required Contributed packages that are required Packages that are required for installing 'annotate' Imported functions Imported S4 methods Imported S4 classes The whole namespace is imported


Dependency table

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

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

Parent package Field imports importMethods importClasses Required packages Heaviness from parent on annotate
AnnotationDbi Depends 0 18 1 44 29
XML Depends 13 0 0 2 1
xtable Imports 1 0 0 2 1
graphics Imports 3 0 0 0 0
utils Imports 4 0 0 0 0
stats Imports 2 0 0 0 0
methods Imports The whole set of functions/methods/classes from parent package is imported to the namespace of annotate. 0 0
DBI Imports 0 3 0 1 0
BiocGenerics Imports The whole set of functions/methods/classes from parent package is imported to the namespace of annotate. 4 0
Biobase Imports 1 4 1 5 0
httr Imports 1 0 0 9 0
genefilter Suggests No object is imported into the namespace of annotate. 53 7
tkWidgets Suggests No object is imported into the namespace of annotate. 6 4
Rgraphviz Suggests No object is imported into the namespace of annotate. 9 3
hgu95av2.db Suggests No object is imported into the namespace of annotate. 46 2
rae230a.db Suggests No object is imported into the namespace of annotate. 46 2
humanCHRLOC Suggests No object is imported into the namespace of annotate. 0 1
RUnit Suggests No object is imported into the namespace of annotate. 3 1
rae230aprobe Suggests No object is imported into the namespace of annotate. 45 1
GO.db Suggests No object is imported into the namespace of annotate. 45 1
org.Hs.eg.db Suggests No object is imported into the namespace of annotate. 45 1
org.Mm.eg.db Suggests No object is imported into the namespace of annotate. 45 1
IRanges Suggests No object is imported into the namespace of annotate. 7 0
Biostrings Suggests No object is imported into the namespace of annotate. 17 0

Analysis was done with pkgndep.