beadcount: Creates matrix of beacounts from minfi data.

Description Usage Arguments Value Note Author(s) References

View source: R/pfilter.R

Description

Creates matrix of beacounts from data read in using the minfi package. NAs represent probes with beadcount <3. An Extended RG Channel Set is required for this function to work.

Usage

1

Arguments

x

450K methylation data read in using minfi to create an Extended RG Channel Set

Value

A matrix of bead counts with bead counts <3 represented by NA for use in the pfilter function for quality control

Note

The beadcount function is internal to the pfilter function

Author(s)

[email protected]

References

[1] Pidsley R, Wong CCY, Volta M, Lunnon K, Mill J, Schalkwyk LC: A data-driven approach to preprocessing Illumina 450K methylation array data (submitted)


schalkwyk/wateRmelon documentation built on Oct. 27, 2018, 3:26 a.m.