Description Usage Arguments Value Examples
Applies a simple fold change filter on the data.
1 | fold.change.filter(data, theta, class1.inxs, class2.inxs)
|
data |
- transposed gene data |
theta |
- if > 1, theta is the target number of ranked variables; otherwise, it is the top theta fraction of ranked variables. |
class1.inxs |
- the row indices of class 1 |
class2.inxs |
- the row indices of class 2 |
filtered dataset
1 2 3 4 5 6 7 8 | download.example.data()
webg.pathways = load.WebGestalt("Marra_0_wiki_protein_enrichment.tsv",'Wiki')
gene.ids = get.genes.wiki(webg.pathways)
Cattaneo.rna = load.gene.data("Cattaneo_array.csv",5)
prioritized.data = list.filter(Cattaneo.rna$transposed.data,gene.ids)
prioritized.filtered.data = fold.change.filter(prioritized.data,100,
which(prioritized.data$labels=='adenoma'),
which(prioritized.data$labels=='normal'))
|
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