make.genotypes: Create an 'argyle::genotypes' object via a database query

In andrewparkermorgan/genodb: R Access to Genotype Databases

Description

Create an argyle::genotypes object via a database query

Usage

make.genotypes(ids, snps = NULL, by = c("name", "id"),
  keep.intensity = TRUE, rename = TRUE, make.names.markers = FALSE, ...)

Arguments

ids	vector of sample IDs (names or internal database IDs)
snps	a codedataframe containing marker map in argyle format: columns chromosome, marker name, cM position, physical position, allele 1, allele 2
by	search for samples by unique numeric ID ("id") or by human-readable sample name ("name")
keep.intensity	logical; if TRUE, return both genotype calls and hybridization intensities
make.names.markers	logical; if TRUE, sanitize marker names of some non-alphanumeric characters with make.names()
...	other options passed to fetch.intensities()

Value

a argyle::genotypes object

andrewparkermorgan/genodb documentation built on May 10, 2019, 11:09 a.m.