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goSorensen

Statistical inference based on the Sorensen-Dice dissimilarity and the Gene Ontology (GO)

Bioconductor version: 3.23 · Package version: 1.14.0

This package implements inferential methods to compare gene lists in terms of their biological meaning as expressed in the GO. The compared gene lists are characterized by cross-tabulation frequency tables of enriched GO items. Dissimilarity between gene lists is evaluated using the Sorensen-Dice index. The fundamental guiding principle is that two gene lists are taken as similar if they share a great proportion of common enriched GO items.

Installation

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("goSorensen")

Details

MaintainerPablo Flores <p_flores@espoch.edu.ec>
AuthorPablo Flores [aut, cre] (<https://orcid.org/0000-0002-7156-8547>), Jordi Ocana [aut, ctb] (0000-0002-4736-699), Alexandre Sanchez-Pla [ctb] (<https://orcid.org/0000-0002-8673-7737>), Miquel Salicru [ctb] (<https://orcid.org/0000-0001-9644-5626>)
LicenseGPL-3
Downloads rank206
Source branchRELEASE_3_23
biocViewsAnnotation, Clustering, GO, GeneExpression, GeneSetEnrichment, GraphAndNetwork, KEGG, Microarray, MultipleComparison, Pathways, Reactome, Software

Documentation

Download

Dependencies

Depends: R (>= 4.4)

Imports: clusterProfiler, goProfiles, org.Hs.eg.db, parallel, stats, stringr

Suggests: BiocManager, BiocStyle, knitr, rmarkdown, org.At.tair.db, org.Ag.eg.db, org.Bt.eg.db, org.Ce.eg.db, org.Cf.eg.db, org.Dm.eg.db, org.Dr.eg.db, org.EcSakai.eg.db, org.EcK12.eg.db, org.Gg.eg.db, org.Mm.eg.db, org.Mmu.eg.db, org.Rn.eg.db, org.Sc.sgd.db, org.Ss.eg.db, org.Pt.eg.db, org.Xl.eg.db, GO.db, ggplot2, ggrepel, DT, magick