Dependency analysis on package crlmm

General information

Bioconductor link link
Package version1.54.0
Number of strong dependencies63
Number of all dependencies68
Number of parent packages22
Max heaviness from parent packages29
Total heaviness from parent packages42
Number of parent packages (including Suggests and Enhances)26
Max co-heaviness from parent packages ("foreach" and "oligoClasses")3

Dependency heatmap

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

Adjust heatmap size:
Base packages Other packages Depends Imports Suggests stats utils methods graphics grDevices grid stats4 splines tools BiocGenerics Matrix zlibbioc lattice codetools iterators Rcpp bit Biobase IRanges GenomicRanges SummarizedExperiment Biostrings affyio foreach BiocManager S4Vectors RSQLite DBI ff GenomeInfoDb XVector MatrixGenerics DelayedArray crayon bit64 blob memoise pkgconfig plogr RCurl GenomeInfoDbData matrixStats rlang vctrs cachem bitops cli glue fastmap base64 openssl askpass sys survival 0 10 20 30 40 Imported methods 0 20 40 Required packages 0 10 20 30 Heaviness from parents preprocessCore oligoClasses methods splines stats utils matrixStats parallel graphics beanplot affyio ellipse mvtnorm ff foreach BiocGenerics illuminaio VGAM Biobase lattice limma RcppEigen hapmapsnp6 genomewidesnp6Crlmm RUnit snpStats In total 63 packages are required directly or indirectly (68) when installing 'crlmm' (1.54.0) Depends Imports Suggests Base packages that are required Recommended packages that are required Contributed packages that are required Packages that are required for installing 'crlmm' Imported functions Imported S4 methods Imported S4 classes 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 crlmm.

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

Parent package Field imports importMethods importClasses Required packages Heaviness from parent on crlmm
oligoClasses Depends 17 18 4 48 29
preprocessCore Depends 4 0 0 1 1
illuminaio Imports 1 0 0 4 5
parallel Imports 6 0 0 0 1
beanplot Imports 1 0 0 0 1
ellipse Imports 1 0 0 2 1
mvtnorm Imports 1 0 0 2 1
VGAM Imports 3 0 0 4 1
limma Imports 1 0 0 5 1
RcppEigen Imports 1 0 0 9 1
methods Imports The whole set of functions/methods/classes from parent package is imported to the namespace of crlmm. 0 0
splines Imports Parent package is listed in Imports of crlmm but no object from parent package is imported. 0 0
stats Imports 9 0 0 0 0
utils Imports 3 0 0 0 0
matrixStats Imports The whole set of functions/methods/classes from parent package is imported to the namespace of crlmm. 0 0
graphics Imports 3 0 0 0 0
affyio Imports 2 0 0 2 0
ff Imports 1 0 0 2 0
foreach Imports The whole set of functions/methods/classes from parent package is imported to the namespace of crlmm. 3 0
BiocGenerics Imports 0 21 0 4 0
Biobase Imports 4 23 2 5 0
lattice Imports 5 0 0 5 0
snpStats Suggests No object is imported into the namespace of crlmm. 12 2
hapmapsnp6 Suggests No object is imported into the namespace of crlmm. 0 1
genomewidesnp6Crlmm Suggests No object is imported into the namespace of crlmm. 1 1
RUnit Suggests No object is imported into the namespace of crlmm. 3 1

Analysis was done with pkgndep.