ClustDiffGenes {DIscBIO} | R Documentation |
ClustDiffGenes
Description
Creates a table of cluster differences
Usage
ClustDiffGenes(
object,
K,
pValue = 0.05,
fdr = 0.01,
export = FALSE,
quiet = FALSE,
filename_up = "Up-DEG-cluster",
filename_down = "Down-DEG-cluster",
filename_binom = "binomial-DEGsTable",
filename_sigdeg = "binomial-sigDEG"
)
## S4 method for signature 'DISCBIO'
ClustDiffGenes(
object,
K,
pValue = 0.05,
fdr = 0.01,
export = FALSE,
quiet = FALSE,
filename_up = "Up-DEG-cluster",
filename_down = "Down-DEG-cluster",
filename_binom = "binomial-DEGsTable",
filename_sigdeg = "binomial-sigDEG"
)
Arguments
object |
|
K |
A numeric value of the number of clusters. |
pValue |
A numeric value of the p-value. Default is 0.05. |
fdr |
A numeric value of the false discovery rate. Default is 0.01. |
export |
A logical vector that allows writing the final gene list in excel file. Default is TRUE. |
quiet |
if 'TRUE', suppresses intermediate text output |
filename_up |
Name of the exported "up" file (if 'export=TRUE') |
filename_down |
Name of the exported "down" file (if 'export=TRUE') |
filename_binom |
Name of the exported binomial file |
filename_sigdeg |
Name of the exported sigDEG file |
Value
A list containing two tables.
Examples
sc <- DISCBIO(valuesG1msTest)
sc <- Clustexp(sc, cln = 3, quiet = TRUE)
cdiff <- ClustDiffGenes(sc, K = 3, fdr = .3, export = FALSE)
str(cdiff)
cdiff[[2]]
[Package DIscBIO version 1.2.2 Index]