Dependency analysis on package DropletTestFiles

General information

Bioconductor link link
Package version1.6.0
Number of strong dependencies87
Number of all dependencies145
Number of parent packages4
Max heaviness from parent packages1
Total heaviness from parent packages1
Number of parent packages (including Suggests and Enhances)9
Max co-heaviness from parent packages ("ExperimentHub" and "AnnotationHub")79

Dependency heatmap

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

Adjust heatmap size:
Base packages Other packages Imports Suggests methods utils stats tools grDevices graphics stats4 grid parallel glue magrittr yaml jsonlite R6 rlang digest BiocGenerics rappdirs htmltools fastmap bslib jquerylib base64enc sass fs S4Vectors BiocManager pkgconfig Rcpp Biobase IRanges lifecycle tibble vctrs pillar cli withr crayon ellipsis fansi utf8 XVector GenomeInfoDb zlibbioc RCurl GenomeInfoDbData bitops BiocFileCache curl RSQLite BiocVersion AnnotationDbi interactiveDisplayBase httr dplyr dbplyr DBI filelock bit64 blob memoise plogr KEGGREST shiny DT mime openssl generics tidyselect assertthat purrr bit cachem png Biostrings httpuv xtable fontawesome sourcetools later promises commonmark htmlwidgets crosstalk askpass lazyeval sys AnnotationHub evaluate xfun highr stringr stringi knitr tinytex bookdown rmarkdown brio callr desc pkgload praise processx ps waldo rprojroot rstudioapi diffobj rematch2 SingleCellExperiment Matrix GenomicRanges SummarizedExperiment BiocParallel DelayedArray DelayedMatrixStats HDF5Array rhdf5 edgeR R.utils dqrng beachmat scuttle Rhdf5lib BH lattice MatrixGenerics futile.logger snow codetools matrixStats sparseMatrixStats rhdf5filters limma locfit R.oo R.methodsS3 sitmo lambda.r futile.options formatR 0 1 2 Imported methods 0 20 40 60 80 Required packages 0 10 20 30 Heaviness from parents utils S4Vectors AnnotationHub ExperimentHub knitr rmarkdown BiocStyle testthat DropletUtils In total 87 packages are required directly or indirectly (145) when installing 'DropletTestFiles' (1.6.0) Imports Suggests Base packages that are required Recommended packages that are required Contributed packages that are required Packages that are required for installing 'DropletTestFiles' Imported functions


Dependency table

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

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

Parent package Field imports importMethods importClasses Required packages Heaviness from parent on DropletTestFiles
ExperimentHub Imports 1 0 0 86 1
utils Imports 2 0 0 0 0
S4Vectors Imports 1 0 0 6 0
AnnotationHub Imports 1 0 0 85 0
DropletUtils Suggests No object is imported into the namespace of DropletTestFiles. 52 35
testthat Suggests No object is imported into the namespace of DropletTestFiles. 36 14
BiocStyle Suggests No object is imported into the namespace of DropletTestFiles. 30 10
rmarkdown Suggests No object is imported into the namespace of DropletTestFiles. 27 8
knitr Suggests No object is imported into the namespace of DropletTestFiles. 12 6

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 DropletTestFiles Co-heaviness as Jaccard coeffcient
AnnotationHub ExperimentHub 79 0.988

Analysis was done with pkgndep.