goSorensen
This is the development version of goSorensen; for the stable release version, see goSorensen.
Statistical inference based on the Sorensen-Dice dissimilarity and the Gene Ontology (GO)
Bioconductor version: Development (3.21)
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.
Author: Pablo Flores [aut, cre] (ORCID:
Maintainer: Pablo Flores <p_flores at espoch.edu.ec>
citation("goSorensen")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("goSorensen")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("goSorensen")| An introduction to equivalence test between feature lists using goSorensen. | HTML | R Script |
| An Irrelevance Threshold Matrix of Dissimilarities. | HTML | R Script |
| README | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Annotation, Clustering, GO, GeneExpression, GeneSetEnrichment, GraphAndNetwork, KEGG, Microarray, MultipleComparison, Pathways, Reactome, Software |
| Version | 1.9.0 |
| In Bioconductor since | BioC 3.16 (R-4.2) (2 years) |
| License | GPL-3 |
| Depends | R (>= 4.3) |
| Imports | clusterProfiler, goProfiles, org.Hs.eg.db, parallel, stats, stringr |
| System Requirements | |
| URL |
See More
| 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 |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | goSorensen_1.9.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (x86_64) | |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/goSorensen |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/goSorensen |
| Bioc Package Browser | https://code.bioconductor.org/browse/goSorensen/ |
| Package Short Url | https://bioconductor.org/packages/goSorensen/ |
| Package Downloads Report | Download Stats |