transformFilter-class: A class for encapsulating a filter to be performed on...

In flowCore: flowCore: Basic structures for flow cytometry data

Description

The transformFilter class is a mechanism for including one or more variable transformations into the filtering process. Using a special case of transform we can introduce transformations inline with the filtering process eliminating the need to process flowFrame objects before applying a filter.

Slots

transforms

A list of transforms to perform on the target flowFrame

filter

The filter to be applied to the transformed frame

filterId

The name of the filter (chosen automatically)

Objects from the Class

Objects of this type are not generally created “by hand”. They are a side effect of the use of the %on% method with a filter object on the left hand side and a transformList on the right hand side.

Extends

Class "filter", directly.

Author(s)

B. Ellis

See Also

"filter", "transform", transform

Examples

require(flowStats)
samp <- read.FCS(system.file("extdata", "0877408774.B08", package="flowCore"))

## Gate this object after log transforming the forward and side
## scatter variables
filter(samp, norm2Filter("FSC-H", "SSC-H", scale.factor=2)
       %on% transform("FSC-H"=log,"SSC-H"=log))

flowCore documentation built on Nov. 8, 2020, 5:19 p.m.