edgeRDS: Differential expression analysis on the server-side

In isglobal-brge/dsOmics: DataSHIELD server site Omic functions

Differential expression analysis on the server-side

Description

Performs a differential expression analysis based on the negative binomial distribution.

Usage

edgeRDS(
  set,
  variable_names,
  intercept,
  dispersion,
  normalization,
  contrast,
  levels,
  test,
  coef
)

Arguments

set	RangedSummarizedExperiment object
variable_names	grouping variables used to perform differential expression analysis
intercept	model intercept
dispersion	type of dispersion to estimate
normalization	normalization method
contrast	character or numeric vector specifying the contrast
levels	character or factor vector specifying the names of the contrast parameters
test	test for differential expression analysis
coef	a character or an integer indicating the coefficient to be tested equal to zero

Details

This function performs a differential expression analysis for SummarizedExperiment input using functions from edgeR Bioconductor's package.

edgeRDS is a server-side aggregate function called by ds.edgeR.

Author(s)

L. Abarrategui for DataSHILED development team

isglobal-brge/dsOmics documentation built on Nov. 6, 2024, 1:28 a.m.