fit {cancerclass} | R Documentation

## Fitting of a predictor

### Description

Fits a predictor to a training data set.

### Usage

      fit(eset, class="class", method = "welch.test", hparam = 0.75)

### Arguments

`eset` | Bioconductor ExpressionSet
`class` | Character vector specifying classes related to the samples.
`method` | Character string specifying the feature selection method. Possible values are "cor", "student.test", "welch.test", "wilcoxon.test", "foldchange", "copa", "os", "ort", "shift", "throw".
`hparam` | Hyperparamter needed for the feature selection methods: Confidential Interval for copa, ort, os (e.g. 0.75, 0.95). Minimum number of samples in each class after applying shift/throw (only necessary for the feature selection methods: throw, shift).

### Details

The matrix `eset` contains the expression signatures of the patients in the columns. The vector `class` contains the class membership of each sample or patient. Only two-class problems are supported. The colnames of `eset` are matched to the names of `classifier` (if both exist).

The hyperparameter `hparam` describes the minimum number of samples in each class after applying shift/throw. For `copa` the hyperparameter is quanilte for the definition of outliers. Typical values are 0.75 (default), 0.9, 0.95.

A nearest centroid predictor is constructed by calculating the average level ofeach feature in each of the two classes of the trainig data set.

### Value

A `predictor` object, see `predictor.object` for details.

### See Also

`predictor`

### Examples

    ### see: help(GOLUB);

[Package cancerclass version 1.30.0 Index]