hpo_frequencies: Human Phenotype Ontology: phenotype frequencies

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

Human Phenotype Ontology: phenotype frequencies

Description

Frequency of each HPO term WITHIN all associated diseases (as opposed to the general population). In order of increasing frequency:

• HP:0040284 "Very rare (<4-1%)"

• HP:0040283 "Occasional (29-5%)"

• HP:0040282 "Frequent (79-30%)"

• HP:0040281 "Very frequent (99-80%)"

• HP:0040280 "Obligate (100%)"

Usage

data("hpo_frequencies")

Format

data.table

Source

Column explanations

annot <- load_phenotype_to_genes("phenotype.hpoa") hpo_frequencies <- HPOExplorer:::parse_pheno_frequency(annot=annot) hpo_frequencies <- HPOExplorer:::as_ascii(dat=hpo_frequencies) data.table::setcolorder(hpo_frequencies,c("disease_id","hpo_id")) usethis::use_data(hpo_frequencies, overwrite = TRUE)

neurogenomics/HPOExplorer documentation built on Aug. 24, 2024, 1:39 a.m.