Dependency analysis on package SIFT.Hsapiens.dbSNP132

General information

Bioconductor link link
Package version1.0.2
Number of strong dependencies99
Number of all dependencies99
Number of parent packages3
Max heaviness from parent packages54
Total heaviness from parent packages54
Number of parent packages (including Suggests and Enhances)3
Max co-heaviness from parent packages ("AnnotationDbi" and "VariantAnnotation")27

Dependency heatmap

In the following dependency heatmap, rows are the parent packages of SIFT.Hsapiens.dbSNP132 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 SIFT.Hsapiens.dbSNP132.

Adjust heatmap size:
Base packages Other packages Depends Imports methods utils stats graphics stats4 tools grDevices grid parallel DBI bit64 blob memoise pkgconfig Rcpp plogr bit rlang vctrs cachem glue cli fastmap BiocGenerics GenomeInfoDb zlibbioc Biobase S4Vectors IRanges XVector Biostrings RCurl GenomeInfoDbData bitops crayon RSQLite KEGGREST httr png curl jsonlite mime openssl R6 askpass sys MatrixGenerics GenomicRanges SummarizedExperiment Rsamtools AnnotationDbi rtracklayer BSgenome GenomicFeatures Rhtslib matrixStats Matrix DelayedArray BiocParallel XML GenomicAlignments BiocIO restfulr biomaRt lattice futile.logger snow codetools BH rjson yaml progress stringr digest BiocFileCache rappdirs xml2 lambda.r futile.options hms prettyunits magrittr stringi dbplyr dplyr filelock formatR ellipsis lifecycle assertthat pillar purrr tibble tidyselect withr generics fansi utf8 0 0.5 1 Imported methods 0 50 100 Required packages 0 20 40 Heaviness from parents RSQLite VariantAnnotation AnnotationDbi In total 99 packages are required directly or indirectly (99) when installing 'SIFT.Hsapiens.dbSNP132' (1.0.2) Depends Imports Base packages that are required Recommended packages that are required Contributed packages that are required Packages that are required for installing 'SIFT.Hsapiens.dbSNP132' Imported functions The whole namespace is imported


Dependency table

"Import" information is from the NAMESPACE file of SIFT.Hsapiens.dbSNP132.

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 SIFT.Hsapiens.dbSNP132: number of required packages that can be reduced if moving parent package to Suggests of SIFT.Hsapiens.dbSNP132.

Parent package Field imports importMethods importClasses Required packages Heaviness from parent on SIFT.Hsapiens.dbSNP132
VariantAnnotation Depends The whole set of functions/methods/classes from parent package is imported to the namespace of SIFT.Hsapiens.dbSNP132. 98 54
RSQLite Depends The whole set of functions/methods/classes from parent package is imported to the namespace of SIFT.Hsapiens.dbSNP132. 17 0
AnnotationDbi Imports 1 0 0 44 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 SIFT.Hsapiens.dbSNP132 Co-heaviness as Jaccard coeffcient
VariantAnnotation AnnotationDbi 27 0.333

Analysis was done with pkgndep.