deg.pairwise.fold.change: find targets that have a consistent fold change in the same...

In fCI: f-divergence Cutoff Index for Differential Expression Analysis in Transcriptomics and Proteomics

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)

fCI documentation built on Nov. 8, 2020, 6:53 p.m.