POST-package: Projection onto Orthogonal Space Testing for High Dimensional...

In xueyuancao/POST: Projection onto Orthogonal Space Testing for High Dimensional Data

Projection onto Orthogonal Space Testing for High Dimensional Data

Description

a tool to indentify gene sets that are associated with a endpoint of interest by projecting the original data of a set to an orthogonal subspace.

Details

Package:	POST
Type:	Package
Version:	0.99.3
Date:	2016-11-2
License:	GPL (>=2)
LazyLoad:	yes

The POST (Projection onto Orthogonal Space Testing) is performed by calling function POSTglm for linear model or POSTcoxph for Cox proportional hazard model. The genomic data such as gene expression is passed through ExpressionSet; The gene set definition is defined by a gene set collection.

Author(s)

Xueyuan Cao [e-mail], Stanley Pounds [e-mail]

Maintainer: Xueyuan Cao [e-mail]

References

Hotelling H. (1936). Relations between two sets of variables. Biometrika, 28, 321-327

Examples

 ## load data
 data(sampExprSet)
 data(sampGeneSet)
 test<-POSTglm(exprSet=sampExprSet,                         
               geneSet=sampGeneSet,                         
               lamda=0.95,                      
               seed=13,                        
               nboots=100,                      
               model='Group ~ ',   
               family=binomial(link = "logit")) 
 

xueyuancao/POST documentation built on May 6, 2023, 8:51 a.m.