group_diff: run differential expression analysis by group

Description Usage Arguments

View source: R/group_diff.R

Description

differential expression analysis by group

Usage

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group_diff(
  data,
  group,
  method = c("wilcox", "Ttest"),
  log2FC = 1,
  pval = 0.05,
  fdr = 0.05,
  part = c("all", "up", "down")
)

Arguments

data

the data matrix to calculate the SD. For the matrix, the rows represent the genomic features, and the columns represents the samples.

group

A data frame contain two columns. The first column is sample name matched with colnames of data, The second column is the cluster label of samples.

method

The methods to calculate the differential features

log2FC

The log2 fold change cutoff, default 1

pval

The p value cutoff, default 0.05

fdr

The FDR cutoff, default 0.05

part

Select the unregulated features


Moonerss/ProteinBase documentation built on Dec. 17, 2021, 4:21 a.m.