npGSEAResultBeta-class: Class '"npGSEAResultBeta"'

In npGSEA: Permutation approximation methods for gene set enrichment analysis (non-permutation GSEA)

Description

Objects of this class store results from running npGSEA with the beta approximation.

Objects from the Class

Objects can be created by calls of npGSEA.

Slots

geneSetName:

Object of class "character", the name of the geneSet

betaStat:

Object of class "numeric" , the test statistic, scaled to the corresponding beta distribution

ThatGw:

Object of class "numeric", the test statistic for the set

varThatGw:

Object of class "numeric", the variance of ThatGw

alpha:

Object of class "numeric", the alpha value

beta:

Object of class "numeric", the beta value

pLeft:

Object of class "numeric", the p-value for the left-side hypothesis

pRight:

Object of class "numeric", the p-value for the right-side hypothesis

pTwoSided:

Object of class "numeric", the p-value for the two-sided hypothesis

xSet:

Object of class "matrix", the centered and scaled x data for this set

betaHats:

Object of class "vector", the betaHats for each gene in this set

Author(s)

Jessica L. Larson

References

Jessica L Larson and Art B Owen: Moment based gene set tests. BMC Bioinformatics 2015, 16:132. http://www.biomedcentral.com/1471-2105/16/132

See Also

npGSEAResultNorm

Examples

showClass("npGSEAResultBeta")

npGSEA documentation built on Nov. 8, 2020, 6:49 p.m.