In aiminy/ModifiedDOSE: Disease Ontology Semantic and Enrichment analysis

library("txtplot")
library("ypages")

DOSE: Disease Ontology Semantic and Enrichment analysis

r badge_release("DOSE", "green") r badge_devel("DOSE", "green") r badge_download("DOSE", "total", "blue") r badge_download("DOSE", "month", "blue")

This package implements five methods proposed by Resnik, Schlicker, Jiang, Lin and Wang respectively for measuring semantic similarities among DO terms and gene products. Enrichment analyses including hypergeometric model and gene set enrichment analysis are also implemented for discovering disease associations of high-throughput biological data.

Here we add a weighted hypergeometric model

Please cite the following article when using DOSE:

G Yu, LG Wang, GR Yan, QY He. DOSE: an R/Bioconductor package for Disease Ontology Semantic and Enrichment analysis. Bioinformatics 2015, 31(4):608-609.

r badge_doi("10.1093/bioinformatics/btu684", "green") r badge_citation("Ug5p-4gJ2f0C", "16627502277303919270", "green") r badge_altmetric("2788597", "green")

For details, please visit our project website, https://guangchuangyu.github.io/DOSE.

Citation

r badge_citation("Ug5p-4gJ2f0C", "16627502277303919270", "green")

d <- get_article_cite_history('DO5oG40AAAAJ', 'Ug5p-4gJ2f0C')
txtplot(d$year, d$cites)

Download stats

r badge_download("DOSE", "total", "blue") r badge_download("DOSE", "month", "blue")

x <- dlstats::bioc_stats("DOSE")
x <- x[-nrow(x), ] # last month data is not complete
txtplot(ggtree::Date2decimal(x$end), x$Nb_of_downloads, width=100, height=25)