hpo_onsets: Human Phenotype Ontology: disease onset

In neurogenomics/HPOExplorer: Analysis and Visualisation of the Human Phenotype Ontology

Human Phenotype Ontology: disease onset

Description

HPO disease onsets.

Usage

data("hpo_onsets")

Format

data.table

Source

annot <- load_phenotype_to_genes(file = "phenotype.hpoa") annot <- annot[onset!="",] annot$onset_name <- map_phenotypes(terms = annot$onset) counts <- dplyr::group_by(annot, disease_id) |> dplyr::summarise(hpo_ids=length(unique(hpo_id)), onsets=length(unique(onset))) ## The number of onsets partially depends on the number of hpo_ids ## so it's necessary to keep hpo_id too. cor(counts$hpo_ids, counts$onsets) hpo_onsets <- annot[,c("disease_id","hpo_id","onset","onset_name")] usethis::use_data(hpo_onsets, overwrite = TRUE)

neurogenomics/HPOExplorer documentation built on July 17, 2024, 3:12 p.m.