flowjo_log_trans: flog transform function

In flowWorkspace: Infrastructure for representing and interacting with gated and ungated cytometry data sets.

Description

flog transform function constructor. It is different from flowCore version of logtGml2 in the way that it reset negative input so that no NAN will be returned.

Usage

flowjo_log_trans(
  decade = 4.5,
  offset = 1,
  scale = 1,
  n = 6,
  equal.space = FALSE
)

Arguments

decade	total number of decades (i.e. log(max)-log(min)
offset	offset to the orignal input(i.e. min value)
scale	the linear scale factor
n	desired number of breaks (the actual number will be different depending on the data range)
equal.space	whether breaks at equal-spaced intervals

Value

flog(or its inverse) transform function

Examples

trans <- flowjo_log_trans()
data.raw <- c(1,1e2,1e3)
data.trans <- trans[["transform"]](data.raw)
data.trans

inverse.trans <- trans[["inverse"]]
inverse.trans(data.trans)

#negative input
data.raw <- c(-10,1e2,1e3)
data.trans <- trans[["transform"]](data.raw)
data.trans
inverse.trans(data.trans)#we lose the original value at lower end since flog can't restore negative value

#different
trans <- flowjo_log_trans(decade = 3, offset = 30)
data.trans <- trans[["transform"]](data.raw)
data.trans
inverse.trans <- trans[["inverse"]]
inverse.trans(data.trans)

flowWorkspace documentation built on Nov. 8, 2020, 8:08 p.m.