Dependency analysis on package DropletUtils

General information

Bioconductor link link
Package version1.16.0
Number of strong dependencies52
Number of all dependencies145
Number of parent packages23
Max heaviness from parent packages3
Total heaviness from parent packages10
Number of parent packages (including Suggests and Enhances)29
Max co-heaviness from parent packages ("scuttle" and "BiocParallel")8

Dependency heatmap

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

Adjust heatmap size:
Base packages Other packages Depends Imports LinkingTo Suggests methods utils stats graphics grDevices tools stats4 grid parallel BiocGenerics S4Vectors IRanges lattice MatrixGenerics Matrix matrixStats DelayedArray Rcpp GenomeInfoDb XVector RCurl GenomeInfoDbData zlibbioc bitops Biobase GenomicRanges BH SummarizedExperiment rhdf5filters Rhdf5lib futile.logger snow codetools lambda.r futile.options formatR sparseMatrixStats R.oo R.methodsS3 sitmo limma locfit rhdf5 SingleCellExperiment BiocParallel DelayedMatrixStats beachmat magrittr glue evaluate yaml digest jsonlite R6 rlang highr stringr xfun stringi htmltools jquerylib bslib base64enc fastmap sass fs rappdirs knitr tinytex BiocManager cli crayon ellipsis lifecycle withr fansi tibble pillar pkgconfig vctrs utf8 bookdown rmarkdown brio callr desc pkgload praise processx ps waldo rprojroot rstudioapi diffobj rematch2 ExperimentHub AnnotationHub 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 0 5 10 15 Imported methods 0 20 40 60 80 Required packages 0 20 40 60 Heaviness from parents SingleCellExperiment utils stats methods Rcpp rhdf5 BiocGenerics R.utils dqrng S4Vectors Matrix IRanges edgeR BiocParallel DelayedArray GenomicRanges beachmat DelayedMatrixStats HDF5Array SummarizedExperiment scuttle Rhdf5lib BH jsonlite knitr rmarkdown BiocStyle testthat DropletTestFiles In total 52 packages are required directly or indirectly (145) when installing 'DropletUtils' (1.16.0) Depends Imports LinkingTo Suggests Base packages that are required Recommended packages that are required Contributed packages that are required Packages that are required for installing 'DropletUtils' Imported functions Imported S4 classes Package is listed in 'Imports' but namespace is not imported


Dependency table

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

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

Parent package Field imports importMethods importClasses Required packages Heaviness from parent on DropletUtils
SingleCellExperiment Depends 1 0 0 25 0
R.utils Imports 1 0 0 5 3
edgeR Imports 2 0 0 10 3
dqrng Imports 1 0 0 5 2
HDF5Array Imports 1 0 0 19 1
scuttle Imports 7 0 0 39 1
utils Imports 4 0 0 0 0
stats Imports 16 0 0 0 0
methods Imports 2 0 0 0 0
Rcpp Imports 1 0 0 2 0
rhdf5 Imports 15 0 0 3 0
BiocGenerics Imports 1 0 0 4 0
S4Vectors Imports 6 0 0 6 0
Matrix Imports 7 0 1 7 0
IRanges Imports 1 0 0 7 0
BiocParallel Imports 6 0 0 11 0
DelayedArray Imports 11 0 2 14 0
GenomicRanges Imports 1 0 0 15 0
beachmat Imports 2 0 0 16 0
DelayedMatrixStats Imports 2 0 0 17 0
SummarizedExperiment Imports 2 0 0 24 0
Rhdf5lib LinkingTo Parent package is listed in LinkingTo of DropletUtils but no object from parent package is imported. 0 0
BH LinkingTo Parent package is listed in LinkingTo of DropletUtils but no object from parent package is imported. 0 0
DropletTestFiles Suggests No object is imported into the namespace of DropletUtils. 87 70
testthat Suggests No object is imported into the namespace of DropletUtils. 36 31
BiocStyle Suggests No object is imported into the namespace of DropletUtils. 30 26
rmarkdown Suggests No object is imported into the namespace of DropletUtils. 27 23
knitr Suggests No object is imported into the namespace of DropletUtils. 12 9
jsonlite Suggests No object is imported into the namespace of DropletUtils. 1 1

Analysis was done with pkgndep.