inferNoiseModel: inferNoiseModel

In oyvble/MPSproto: A Quantitative Model for MPS data with complex stutters

inferNoiseModel

Description

Fitting noise model in data

Usage

inferNoiseModel(sampleNames, locNames, noisedata, AT, print2pdf = NULL)

Arguments

sampleNames	The samples names used for calibrating the noise model (should also count situations without noise)
locNames	The marker names used in calibration.
noisedata	A table with potential noise data (not typical stutters). Can be obtained from the ObtainStutterData function (noisetable)
AT	A detection threshold value or thresholds per marker. NULL ignores filtering.
print2pdf	Name of pdf file for plots

Details

Fitting two parts of the noise model: 1) Fitting the number of noise-observations (per sample) to a geometric distr (1 param) 2) Fitting the coverage/reads to the pareto distribution

oyvble/MPSproto documentation built on March 19, 2024, 5:32 a.m.