GEVAQuantilesAdjusted-class: GEVA Adjusted Quantiles Results

Description Value Slots Methods

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)


nunesijg/geva documentation built on March 12, 2021, 3:58 p.m.