fCI.call.by.index {fCI} | R Documentation

## top level function call to find targets based on expression data and control & case indexes

### Description

top level function call to find targets based on expression data and control & case indexes

### Usage

    fCI.call.by.index(wt.indexes, df.indexes, data.file, use.normalization = FALSE,
      npci=NULL, short.report=TRUE)

### Arguments

`wt.indexes` | The wild type sample column indexes in the matrix, i.e. 1,2
`df.indexes` | The diseases type sample column indexes in the matrix, i.e. 3,4
`data.file` | The expression matrix
`use.normalization` | boolean value whether you want the data to be normalized or not
`npci` | the fCI object
`short.report` | whether you want to have a report summary

### Details

TBD

### Value

`rtable` | A data frame of the detected targets

### Note

TBD

### Author(s)

Shaojun Tang

### References

http://software.steenlab.org/fCI/

### See Also

TBD

### Examples

    wt.indexes=1:2
    df.indexes=3:4
    data.file=data.frame(matrix(sample(3:100, 100*4, replace=TRUE), 100,4))
    use.normalization=FALSE
    npci=NULL
    short.report=TRUE
    fCI.call.by.index(wt.indexes, df.indexes, data.file, use.normalization,
      npci, short.report)

[Package fCI version 1.10.0 Index]