tLOHCalcUpdate: Assement of evidence for LOH in clusters from spatial...

In USCDTG/tLOH: Assessment of evidence for LOH in spatial transcriptomics pre-processed data using Bayes factor calculations

Assement of evidence for LOH in clusters from spatial transcriptomics allele count data

Description

Calculates Bayes factors for allele fractions at each SNP position. Uses dataframe output by tLOHDataImport.

Usage

tLOHCalcUpdate(forCalcDF, alpha1, beta1,alpha2, beta2, countThreshold)

Arguments

forCalcDF	Input dataframe generated from the tLOHDataImport function
alpha1	Model 1 alpha value
beta1	Model 1 beta value
alpha2	Model 2 alpha value
beta2	Model 2 beta value
countThreshold	Threshold for minimum number of read counts

Value

Output is a dataframe with Bayes Factor values

Author(s)

Michelle Webb

Examples

data('humanGBMsampleAC')
df <- tLOHCalcUpdate(humanGBMsampleAC, 1.25,1.25,500,500,4)
head(df)

USCDTG/tLOH documentation built on Oct. 23, 2022, 8:05 p.m.