denoiseFaimsData: Remove background noise from FAIMS data

In mattdneal/FAIMSToolkit: Tools to aid in the analysis of FAIMS data

Description

Denoises FAIMS data. First identifies pixels likely to be solely noise (mean value across all samples close to zero). Then identifies a value to subtract from all pixels by taking the fractionToRemove quantile of all the values in the noise pixels, and subtracts this from the absolute value of each pixels, zeroing any values which are negative after subtracting background noise.

Usage

denoiseFaimsData(faimsObject, fractionNoise = 0.05,
  fractionToRemove = 0.99)

Arguments

fractionNoise	The percentage of pixels to identify as "noise"
fractionToRemove	The quantile value of the noise pixels to subtract from all pixels
FAIMSObject	FAIMS object

Value

a denoised FAIMS data matrix

mattdneal/FAIMSToolkit documentation built on May 21, 2019, 12:57 p.m.