jar: Rate ratios after adding an artificial number to all features

Description Usage Arguments Value Author(s) See Also

View source: R/CSSA.R

Description

jar adds a specified number to all features of both input vectors, after which it calculates rate ratios for all features. The function was designed to prevent zeros in count data.

Usage

1
jar(t1, t0, n = 5, log = TRUE, normfun = "sum", normsubset)

Arguments

t1

Numeric vector. Feature data in test sample

t0

Numeric vector. Feature data in control sample

n

Numeric. Specify how much is added to each value before calculating rate ratios. Default = 5

log

Logical or numeric. Specify whether to log-transform the rate ratio, and with what base. If TRUE, uses log2. Default = TRUE

normfun

Character string. Specify with which function to standardize the data. Default = "sum"

normsubset

Integer vector. Specify the indices of features that are to be used in standardization

Value

Returns a numeric vector of the same length as the input vectors with the (log2-transformed) rate ratios after adding a specified number to all features.

Author(s)

Jos B. Poell

See Also

doublejar


tgac-vumc/CSSA documentation built on Dec. 14, 2019, 9:40 p.m.