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Build instrument table from user-provided data

createInstrumentTable.Rd

Creates a properly formatted instrument table from user-provided GWAS summary statistics, bypassing the OpenGWAS API. Useful when working offline or with custom GWAS results not available in OpenGWAS.

Usage

createInstrumentTable(
  snpId,
  effectAllele,
  otherAllele,
  betaZX,
  seZX,
  pvalZX,
  eaf,
  geneRegion = NULL
)

Arguments

snpId

Character vector of SNP rsIDs.

effectAllele

Character vector of effect alleles.

otherAllele

Character vector of other alleles.

betaZX

Numeric vector of SNP-exposure effect estimates.

seZX

Numeric vector of standard errors.

pvalZX

Numeric vector of p-values.

eaf

Numeric vector of effect allele frequencies.

geneRegion

Optional character vector of gene/region annotations.

Value

A data frame with the same structure as getMRInstruments output.

Details

Create Instrument Table from Local Data

See also

getMRInstruments

Examples

instruments <- createInstrumentTable(
  snpId = c("rs1234", "rs5678"),
  effectAllele = c("A", "G"),
  otherAllele = c("G", "C"),
  betaZX = c(0.5, 0.3),
  seZX = c(0.05, 0.08),
  pvalZX = c(1e-10, 1e-5),
  eaf = c(0.3, 0.45)
)