selectContrib {MineICA} | R Documentation

## Select contributing features/genes

### Description

This function selects elements whose absolute scaled values exceed a given threshold.

### Usage

      selectContrib(object, cutoff, level, ...)

### Arguments

`object` | Either an `IcaSet` object, or a list of projection vectors, e.g the list of feature or gene projections on each component.
`cutoff` | The threshold according to which the elements will be selected. Must be either of length 1 and the same treshold is applied to all components, or of length equal to the number of components in order to use a specific threshold for each component.
`level` | The level of the selection: either `"genes"` to select contributing genes using `SByGene(icaSet)`, or `"features"` to select contributing features using `S(icaSet)`.
`...` | ...

### Details

Each vector is first scaled and then only elements with an absolute scaled value higher than `cutoff` are kept.

### Value

A list of projections restricted to the elements that are higher than `cutoff`.

### Author(s)

Anne Biton

### Examples

    ## Not run:
    ## load an example of icaSet
    data(icaSetCarbayo)

    ##### =========
    ####  When arg 'object' is an IcaSet object
    ##### =========

    ## select contributing genes
    selectContrib(object=icaSetCarbayo, cutoff=3, level="genes")

    ## select contributing features
    selectContrib(object=icaSetCarbayo, cutoff=3, level="features")

    ##### =========
    #### When arg 'object' is a list
    ##### =========
     c1 <- rnorm(100); names(c1) <- 100:199
     c2 <- rnorm(100); names(c2) <- 1:99
     selectContrib(object=list(c1,c2), cutoff= 0.5)

    ## select contributing features
    contribFlist <- selectContrib(Slist(icaSetCarbayo), 3)

    ## select contributing genes
    contribGlist <- selectContrib(SlistByGene(icaSetCarbayo), 3)

    ## End(Not run)

[Package MineICA version 1.26.0 Index]