geneDistributionSet2-class {pathVar} | R Documentation

## Class `"pathVarTwoSamplesCont"`

### Description

This is a class representation for storing the output of the `pathVarTwoSamplesCont` function.

### Objects from the Class

Objects are output by the function `pathVarTwoSamplesCont`. Objects can also be created by calls of the form `new("geneDistributionSet2", ...)`.

### Slots

`tablePway`:

  A `"data.table"` of pathway name, pathway IDs, adjusted p-value from the boot KS test, the number of genes from our dataset inside the pathway and the total number of genes inside the pathway.

`NAPways`:

  A `character` object that contains the pathway names of the pathway having no genes inside the dataset.

`genesInPway`:

  A `list` object that contains the genes from the dataset belonging to each pathway.

`groups`:

  A `factor` object that contains the groups in which group each sample belongs to.

`groupNames`:

  A `character` object that contains the names of the two groups.

`var1`:

  A `numeric` object that contains the statistics (sd, mad, cv or mean) for each gene for group 1.

`var2`:

  A `numeric` object that contains the statistics (sd, mad, cv or mean) for each gene for group 2.

`varStat`:

  A `character` object that contains the statistics sd, mad, cv or mean chosen for the analysis.

### Methods

No methods defined with class "geneDistributionSet2" in the signature.

### Author(s)

Laurence de Torrente, Samuel Zimmerman, Jessica Mar

### Examples

    out <- new("geneDistributionSet2",tablePway=data.table::data.table(),NAPways=character(),genesInPway=list(),groups=as.factor(c(rep(1,10),rep(2,10))),groupNames=character(),var1=c(0),var2=c(0),varStat=character())
    showClass("geneDistributionSet2")

[Package pathVar version 1.12.0 Index]