GSEPD_ProcessAll {rgsepd} | R Documentation

## GSEPD_ProcessAll

### Description

Runs each pairing within GSEPD$sampleMeta$Conditions.

### Usage

    GSEPD_ProcessAll(G)

### Arguments

`G` | The GSEPD object from GSEPD_INIT()

### Details

Set your GSEPD$LIMIT before running each pairwise comparison.

### Value

Returns the last GSEPD object.

### See Also

GSEPD_Process

### Examples

      data("IlluminaBodymap")
      data("IlluminaBodymapMeta")
      head(IlluminaBodymap)
      set.seed(1000) #fixed randomness
      isoform_ids <- Name_to_RefSeq(c("HIF1A","EGFR","MYH7","CD33","BRCA2"))
      rows_of_interest <- unique( c( isoform_ids ,
                                     sample(rownames(IlluminaBodymap),
                                            size=2000,replace=FALSE)))
      G <- GSEPD_INIT(Output_Folder="OUT",
                    finalCounts=round(IlluminaBodymap[rows_of_interest , ]),
                    sampleMeta=IlluminaBodymapMeta,
                    COLORS=c("green","black","red"))

    #  G <- GSEPD_ProcessAll( G ) #would run across all pairs of G$Condition

[Package rgsepd version 1.19.1 Index]