DataFilter$do.apply {IdMappingAnalysis} | R Documentation

## Filter experiment using constraints

### Description

Filter experiment using constraints. The function applyies the constraint filter to the experiment `data.frame`, by rows or columns, replacing the content of each row or column with constraint filter output. In most cases, if the given row or column passes the constraint check, it is left intact and replaced by `NA` 's otherwise. One of the purposes of this function is to perform the quality control of experiment data and filter out series which do not pass the QC by applying the removeNASeries method as the last step.

### Usage

    ## Static method (use this):
    ## DataFilter$do.apply(experimentSet, byRows=TRUE, filterFun=NULL, filtParams=NULL, verbose=FALSE, ...)

    ## Don't use the below:
    ## S3 method for class 'DataFilter'
    do.apply(static, experimentSet, byRows=TRUE, filterFun=NULL, filtParams=NULL, verbose=FALSE, ...)

### Arguments

`experimentSet` | `data.frame` containing probeID (first column/row) and data arranged by series (the rest of columns/rows)
`byRows` | `logical` indicating if series arranged by rows (`TRUE`) or by columns (`FALSE`). Default is `TRUE`.
`filterFun` | The filtering function applyied to the experiment set, typically the constraint filter.
`filtParams` | Filtering function parameters.
`verbose` | If `TRUE` enables diagnostic messages. Default is `FALSE`.
`...` | Not used

### Value

The `data.frame` with data filtered by filterFun.

### Author(s)

Alex Lisovich, Roger Day

### See Also

For more information see `DataFilter`.

[Package IdMappingAnalysis version 1.28.0 Index]