deg.pairwise.fold.change {fCI} | R Documentation

## find targets that have a consistent fold change in the same direction (either up- or down-regulation)

### Description

find targets that have a consistent fold change in the same direction

### Usage

    deg.pairwise.fold.change(pairwise.wt.up.down.fold, pairwise.df.up.down.fold,
      d = 1, min.fold = 1.2)

### Arguments

`pairwise.wt.up.down.fold` | a list of numeric values representing the fold changes between control replicates for every gene
`pairwise.df.up.down.fold` | a list of numeric values representing the fold changes between case and control replicates for every gene
`d` | the dimensionality of the database, if the dataset is from proteogenomics, then d=2
`min.fold` | minimum fold change to declare a gene to be dysregulated, by default, min.fold=2

### Details

TBD

### Value

`expression ratio` | a dataframe of fCI gene expression ratios (folds) with none zero values defined by given control-control index (i.e. 1 & 2) and control-case index (i.e. 3&4)

### Note

TBD

### Author(s)

Shaojun Tang

### References

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

### See Also

TBD

### Examples

    wt.fold.changes=list(c(1.2,1.3,1.5,1.6))
    df.fold.changes=list(c(1.1,1.3,1.4,1.6))
    deg.pairwise.fold.change(wt.fold.changes,df.fold.changes)

[Package fCI version 1.20.0 Index]