degIntersection: Intersection of differentially expressed genes

Description Usage Arguments Value Note Examples

Description

Intersection of differentially expressed genes

Usage

1
2
3
4
5
6
7
8
9
degIntersection(object, ...)

## S4 method for signature 'DESeqAnalysis'
degIntersection(
  object,
  i = NULL,
  direction = c("up", "down"),
  return = c("matrix", "count", "ratio")
)

Arguments

object

Object.

i

character, numeric, or NULL. Names or range of results. If set NULL, include all results.

direction

character(1). Include "up" or "down" directions. Must be directional, and intentionally does not support "both".

return

character(1). Return intersection matrix, count per contrast, or ratio.

...

Passthrough arguments to deg().

Value

integer. Integer denoting the number of intersections, sorted from highest to lowest. Gene identifiers are defined as the names.

Note

Updated 2020-08-18.

Examples

 1
 2
 3
 4
 5
 6
 7
 8
 9
10
11
data(deseq)

## DESeqAnalysis ====
mat <- degIntersection(deseq, return = "matrix")
head(mat)

count <- degIntersection(deseq, return = "count")
head(count)

ratio <- degIntersection(deseq, return = "ratio")
head(ratio)

steinbaugh/DESeqAnalysis documentation built on Oct. 15, 2020, 2:02 a.m.