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Orphanet classifications

Source: R/classifications.R
classifications.Rd

The functions presented below analyze relationships between ORPHAcodes and returns results in a convenient format for further analysis or display.

Usage

load_classifications()

load_all_classifications()

is_in_classif(orpha_code, df_classif)

Arguments

orpha_code

An ORPHAcode.

df_classif

A from/to data.frame providing relationships between ORPHAcodes.

Value

All classifications as a list of data.frame

Returns TRUE if a given ORPHAcode belongs to a given classification, FALSE else.

Details

Orphanet organized its classification system around 34 different hierarchies, which are not completely distinct.

For each hierarchy is listed a set of from/to relationships between ORPHAcodes. A child is always more specific than its parent.

load_classifications Mind using bind_rows followed by distinct to merge all classification.

The classification system will change according to the chosen "RDaggregator_nomenclature" option, that you can set via the RDaggregator_options() interface. Add a new available option with add_nomenclature_pack().

See also

add_nomenclature_pack(), RDaggregator_options()

Examples

library(dplyr)

all_classif = load_classifications()
df_all_classif = load_classifications() %>% bind_rows() %>% distinct()

is_in_classif(303, all_classif[[1]])
#> [1] FALSE
is_in_classif(303, all_classif[[6]])
#> [1] TRUE