map_: Map functions

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

Map functions

Description

Functions to map IDs.

Usage

list_deaths(
  hpo = get_hpo(),
  exclude = FALSE,
  to = c("name", "id"),
  include_na = TRUE
)

list_onsets(
  hpo = get_hpo(),
  exclude = FALSE,
  to = c("name", "id"),
  include_na = TRUE,
  verbose = TRUE
)

Arguments

hpo	Human Phenotype Ontology object, loaded from get_ontology.
exclude	HPO phenotype names to exclude.
to	Character vector of database(s) to map IDs to. When not "mondo", can supply multiple alternative databases to map to (e.g. c("OMIM","Orphanet","DECIPHER")).
include_na	Include NA values for onset.
verbose	Print messages.

Value

Mapped data.

Named list of HPO IDs.

Named list of HPO IDs.

Functions

• list_deaths(): map_ List age of death HPO terms

  List age of death phenotypes in the HPO.

• list_onsets(): map_ List age of onset HPO terms

  List age of onset phenotypes in the HPO.

Examples

deaths <- list_deaths()
onsets <- list_onsets()

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