calCloneLLR: calculate the log likelihood ratio of each clonotype,...

In Japrin/STARTRAC: Single T-cell Analysis by Rna-seq and Tcr TRACking

calculate the log likelihood ratio of each clonotype, accounting the uncertainty of cluster label assignment

Description

calculate the log likelihood ratio of each clonotype, accounting the uncertainty of cluster label assignment

Usage

calCloneLLR(cellData, prob.mat, cloneID.x = NULL, verbose = F)

Arguments

cellData	data.table. Each line for a cell, and these columns as required: 'majorCluster'
prob.mat	matrix Lines for cells, and columns for assignment probability of the majorClusters. row names and column names are required
cloneID.x	character. If specified, it will subset the cellData using clonotype id (default: NULL)
verbose	logical. control the returned data types. (default: FALSE)

Value

a list (verbose==T) or data.table (verbose==F)

Japrin/STARTRAC documentation built on Dec. 4, 2023, 1:35 a.m.