getEnsemblVariantFeatures_serial: Get features of given variant IDs.

In kmeRtone: Multi-Purpose and Flexible k-Meric Enrichment Analysis Software

Get features of given variant IDs.

Description

Function fetches variant features from the Ensembl database for a set of variant IDs. It handles variant IDs in batches to comply with server limits and can include additional information like genotypes, phenotypes, allele frequencies, and genotype frequencies.

Usage

getEnsemblVariantFeatures_serial(
  species,
  variant.ids,
  include.genotypes = FALSE,
  include.phenotypes = FALSE,
  include.allele.frequencies = FALSE,
  include.genotype.frequencies = FALSE
)

Arguments

species	Species name or alias (e.g., homo_sapiens, human).
variant.ids	A vector of variant IDs (e.g., rs56116432, COSM476).
include.genotypes	Include genotypes in the response? Default FALSE.
include.phenotypes	Include phenotypes in the response? Default FALSE.
include.allele.frequencies	Include allele frequencies? Default FALSE.
include.genotype.frequencies	Include genotype frequencies? Default FALSE.

Value

A list, named by variant IDs, containing lists of variant features.

kmeRtone documentation built on Sept. 11, 2024, 9:12 p.m.