brtGetInfection: brtGetInfection

In c57bl/Brt:

brtGetInfection

Description

The negative cutoff can not be inferred from the background noise distribution, instead, the 0 counts of tva or rv was treated as ground truth for the negative. Under this estimate, the infection rate of tva- cells was n_rv+/n_tva-, which is the spread efficiency,se. se is quite important in inferring the initial infection efficiency of TVA+ cells, and the cutoff of tva- cells.

Usage

brtGetInfection(obj, tva.c, rv.c)

Arguments

obj	an brtstarter obj
tva.c	cutoff of tva
rv.c	cutoff of rvcounts.raw

Value

A list contains:

RPT: rv proportion in tva positive cells;

SE: spread efficiency;

IE: infection efficiency,

SP: estimated spread proportion at tva+ cells,

record$IP: infection proportion at different tva counts

record$RP: rv+ proportion at different tva counts

c57bl/Brt documentation built on May 20, 2022, 8:45 p.m.