GEVAQuantilesAdjusted-class {geva} | R Documentation

## GEVA Adjusted Quantiles Results

### Description

The `GEVAQuantilesAdjusted` class represents the results of a quantile detection analysis with adjusted assignments based on relationships with other `GEVAGroupSet` objects. For each probe/gene, there is a assigned quantile among the g defined quantiles.

This class inherits from `GEVAQuantiles`.

### Value

A `GEVAQuantilesAdjusted` object

### Slots

`grouping`

  `factor` (m elements, g levels), quantile assignment for each gene/probe
  (Inherited from `GEVAGroupSet`)

`scores`

  `numeric` vector (m elements) with the assigned quantile scores for each gene/probe
  (Inherited from `GEVAGroupSet`)

`ftable`

  `data.frame` (m lines) with additional quantile assignment data
  (Inherited from `GEVAGroupSet`)

`centroids`

  `numeric SVTable` (g lines) with the S and V centroid coordinates for each quantile
  (Inherited from `GEVAGroupSet`)

`offsets`

  `numeric SVTable` (m lines) with the S and V coordinate offsets each gene/probe from its quantile centroid
  (Inherited from `GEVAGroupSet`)

`info`

  `list` of additional information
  (Inherited from `GEVAGroupSet`)

`svscores`

  `numeric SVTable` (m lines) with individual partial scores for the assigned quantiles
  (Inherited from `GEVAQuantiles`)

`qareasizes`

  `numeric SVTable` (g lines) with the S and V sizes for each quantile
  (Inherited from `GEVAQuantiles`)

`qindexes`

  `integer SVTable` (g lines) representing the position index to each quantile, in terms of summary and variation
  (Inherited from `GEVAQuantiles`)

`qcount`

  integer attributes (`SVIntAttribute`) with the defined number of quantiles for the S and V axes
  (Inherited from `GEVAQuantiles`)

`qcutoff`

  numeric attributes (`SVNumAttribute`) with the initial quantile cutoff in S and V, starting from the point zero
  (Inherited from `GEVAQuantiles`)

`grouprels`

  `TypedList` of `named factor` elements representing external group relationships to the current quantiles

### Methods

(See also the inherited methods from `GEVAQuantiles` and `GEVAGroupSet`)

[Package geva version 1.0.0 Index]