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Functions to perform the following analyses: i) inferring epistasis from RNAi double knockdown data; ii) identifying gene pairs of multiple mutation patterns; iii) assessing association between gene pairs and survival; and iv) calculating the smallworldness of a graph (e.g., a gene interaction network). Data and analyses are described in Wang, X., Fu, A. Q., McNerney, M. and White, K. P. (2014). Widespread genetic epistasis among breast cancer genes. Nature Communications. 5 4828. <doi:10.1038/ncomms5828>.
| Version: | 1.0.1 |
| Depends: | R (≥ 2.10) |
| Imports: | systemfit, qvalue, survival, reshape2, igraph |
| Published: | 2023-09-07 |
| DOI: | 10.32614/CRAN.package.cancerGI |
| Author: | Audrey Qiuyan Fu and Xiaoyue Wang |
| Maintainer: | Audrey Q. Fu <audreyqyfu at gmail.com> |
| License: | GPL-2 | GPL-3 [expanded from: GPL (≥ 2)] |
| NeedsCompilation: | no |
| CRAN checks: | cancerGI results |
| Reference manual: | cancerGI.pdf |
| Package source: | cancerGI_1.0.1.tar.gz |
| Windows binaries: | r-devel: cancerGI_1.0.1.zip, r-release: cancerGI_1.0.1.zip, r-oldrel: cancerGI_1.0.1.zip |
| macOS binaries: | r-release (arm64): cancerGI_1.0.1.tgz, r-oldrel (arm64): cancerGI_1.0.1.tgz, r-release (x86_64): cancerGI_1.0.1.tgz, r-oldrel (x86_64): cancerGI_1.0.1.tgz |
| Old sources: | cancerGI archive |
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