KO_safe {ReporterScore} | R Documentation |
Perform Significance Analysis of Function and Expression
Description
Perform Significance Analysis of Function and Expression
Usage
KO_safe(
reporter_res,
verbose = TRUE,
perm = 1000,
C.matrix = NULL,
p.adjust.method = "BH",
...
)
Arguments
reporter_res |
The input reporter result. |
verbose |
If TRUE, print verbose messages. Default is TRUE. |
perm |
The number of permutations. Default is 1000. |
C.matrix |
The contrast matrix. Default is NULL, and it will be generated from the module list. |
p.adjust.method |
Method for p-value adjustment. Default is "BH". |
... |
Additional parameters to be passed to |
Value
A data frame containing SAFE results for KO enrichment.
See Also
Other common_enrich:
KO_enrich()
,
KO_fisher()
,
KO_gsa()
,
KO_gsea()
,
KO_gsva()
,
KO_padog()
,
KO_sea()
,
plot_enrich_res()
Examples
## use `safe` from the `safe` package.
if (requireNamespace("safe")) {
data("reporter_score_res")
safe_res <- KO_safe(reporter_score_res,
verbose = TRUE,
perm = 200, p.adjust.method = "none"
)
}
[Package ReporterScore version 0.1.6 Index]