Package: ICDS
Type: Package
Title: Identification of Cancer Dysfunctional Subpathway by Integrating
        DNA Methylation, Copy Number Variation, and Gene Expression
        Data
Version: 0.1.1
Author: Junwei Han,Baotong Zheng,Siyao Liu
Maintainer: Junwei Han <hanjunwei1981@163.com>
Description: Identify Cancer Dysfunctional Sub-pathway by integrating gene expression, DNA methylation and copy number variation, and pathway topological information. 1)We firstly calculate the gene risk scores by integrating three kinds of data: DNA methylation, copy number variation, and gene expression.  2)Secondly, we perform a greedy search algorithm to identify the key dysfunctional sub-pathways within the pathways for which the discriminative scores were locally maximal. 3)Finally, the permutation test was used to calculate statistical significance level for these key dysfunctional sub-pathways.
License: GPL (>= 2)
Encoding: UTF-8
LazyData: true
Suggests: knitr, rmarkdown, prettydoc
VignetteBuilder: knitr
Imports: igraph, graphite, metap, methods, org.Hs.eg.db
Depends: R (>= 2.10)
RoxygenNote: 6.1.1
NeedsCompilation: no
Packaged: 2019-01-18 08:22:40 UTC; zbt
Repository: CRAN
Date/Publication: 2019-01-25 17:00:10 UTC
Built: R 4.0.2; ; 2020-08-02 14:04:55 UTC; windows
