DESCRIPTION

Package: FUNNEL
Type: Package
Title: FUNNEL-GSEA: FUNctioNal ELastic-net Regression in time-course Gene Set Enrichment Analysis
Version: 1.0.0
Date: 2019-08-09
Author: Yun Zhang, Juilee Thakar, Xing Qiu 
Maintainer: Yun Zhang <zhangy@jcvi.org>; Xing Qiu <xing_qiu@urmc.rochester.edu>
Description: This is a statistical inference framework for GSEA based on FUNctioNal ELastic-net regression, which utilizes the temporal information based on functional principal component analysis (FPCA), and disentangles the effects of overlapping genes by a functional extension of the elastic-net regression. It then performs hypothesis testing for gene sets by an extension of Mann-Whitney U test which is based on weighted rank sums computed from correlated observations.
Depends: R (>= 3.2.0)
Imports: MASS, akima, fda, quadrupen, pheatmap, RColorBrewer
VignetteBuilder: knitr
Suggests: knitr, rmarkdown, limma
License: GPL-3
LazyData: true