chipAddressToSignal: Lookup address in one sample

In zwdzwd/sesame: SEnsible Step-wise Analysis of DNA MEthylation BeadChips

Lookup address in one sample

Description

Lookup address and transform address to probe

Usage

chipAddressToSignal(dm, mft, min_beads = NULL)

Arguments

dm	data frame in chip address, 2 columns: cy3/Grn and cy5/Red
mft	a data frame with columns Probe_ID, M, U and col
min_beads	minimum bead counts, otherwise masked

Details

Translate data in chip address to probe address. Type I probes can be separated into Red and Grn channels. The methylated allele and unmethylated allele are at different addresses. For type II probes methylation allele and unmethylated allele are at the same address. Grn channel is for methylated allele and Red channel is for unmethylated allele. The out-of-band signals are type I probes measured using the other channel.

Value

a SigDF, indexed by probe ID address

zwdzwd/sesame documentation built on Dec. 21, 2024, 1:20 p.m.