samplesPerFeature {fabia} | R Documentation

## Factor Analysis for Bicluster Acquisition: Supplies samples per feature

### Description

`samplesPerFeature`: C implementation of `samplesPerFeature`.

### Usage

    samplesPerFeature(X,samples=0,lowerB=0.0,upperB=1000.0)

### Arguments

`X` | the file name of the sparse matrix in sparse format.
`samples` | vector of samples which should be read; default = 0 (all samples)
`lowerB` | lower bound for filtering the inputs columns, the minimal column sum; default = 0.0.
`upperB` | upper bound for filtering the inputs columns, the maximal column sum; default = 1000.0.

### Details

Supplies the samples for which a feature is not zero.

The data matrix is directly scanned by the C-code and must be in sparse matrix format.

Sparse matrix format: *first line: numer of rows (the samples). *second line: number of columns (the features). *following lines: for each sample (rows) three lines with

I) number of nonzero row elements

II) indices of the nonzero row elements (ATTENTION: starts with 0!!)

III) values of the nonzero row elements (ATTENTION: floats with decimal point like 1.0 !!)

The code is implemented in C.

### Value

`` | list with elements: `sL` (List with one element per feature: each element is a vector of samples where the feature is not zero.) `nsL` Vector of feature length containing number of samples having a non-zero feature value.

### Author(s)

Sepp Hochreiter

### References

S. Hochreiter et al., ‘FABIA: Factor Analysis for Bicluster Acquisition’, Bioinformatics 26(12):1520-1527, 2010. http://bioinformatics.oxfordjournals.org/cgi/content/abstract/btq227

### See Also

`fabia`, `fabias`, `fabiap`, `spfabia`, `readSamplesSpfabia`, `samplesPerFeature`, `readSpfabiaResult`, `fabi`, `fabiasp`, `mfsc`, `nmfdiv`, `nmfeu`, `nmfsc`, `extractPlot`, `extractBic`, `plotBicluster`, `Factorization`, `projFuncPos`, `projFunc`, `estimateMode`, `makeFabiaData`, `makeFabiaDataBlocks`, `makeFabiaDataPos`, `makeFabiaDataBlocksPos`, `matrixImagePlot`, `fabiaDemo`, `fabiaVersion`

### Examples

    #---------------
    # TEST
    #---------------

[Package fabia version 2.38.0 Index]