isglobal-brge/CNVassoc: Association analysis of CNVs and imputed SNPs incorporating uncertainty
Carries out analysis of common Copy Number Variants (CNVs) and imputed Single Nucleotide Polymorphisms (SNPs) in population-based studies. It includes tools for estimating association under a series of study designs (case-control, cohort, etc), using several dependent variables (class status, censored data, counts) as response, adjusting for covariates and considering various inheritance models. Moreover, it is possible to perform epistasis studies with pairs of CNVs or imputed SNPs. It has been optimized in order to make feasible the analyses of Genome Wide Association studies (GWAs) with hundreds of thousands of genetic variants (CNVs / imputed SNPs). Also, it incorporates functions for inferring copy number (CNV genotype calling). Various classes and methods for generic functions (print, summary, plot, anova, ...) have been created to facilitate the analysis.
Getting started
Browse package contents
Package details |
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| Author | Juan R González, Isaac Subirana |
| Bioconductor views | BatchEffect Clustering Genetics GenomeWideAssociation Regression |
| Maintainer | Isaac Subirana <isubirana@imim.es> |
| License | GPL (>= 2) |
| Version | 2.4.0 |
| URL | https://github.com/isglobal-brge/CNVassoc |
| Package repository | View on GitHub |
| Installation |
Install the latest version of this package by entering the following in R:
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