SNPassoc: SNPs-Based Whole Genome Association Studies
Functions to perform most of the common analysis in genome
association studies are implemented. These analyses include descriptive
statistics and exploratory analysis of missing values, calculation of
Hardy-Weinberg equilibrium, analysis of association based on generalized
linear models (either for quantitative or binary traits), and analysis
of multiple SNPs (haplotype and epistasis analysis). Permutation test
and related tests (sum statistic and truncated product) are also
implemented. Max-statistic and genetic risk-allele score exact
distributions are also possible to be estimated. The methods are
described in Gonzalez JR et al., 2007 <doi:10.1093/bioinformatics/btm025>.
| Version: |
2.1-2 |
| Depends: |
R (≥ 4.0.0) |
| Imports: |
haplo.stats, mvtnorm, parallel, survival, tidyr, plyr, ggplot2, poisbinom |
| Suggests: |
testthat, knitr, rmarkdown, biomaRt, VariantAnnotation, GenomicRanges, IRanges, S4Vectors, org.Hs.eg.db, TxDb.Hsapiens.UCSC.hg19.knownGene |
| Published: |
2024-10-28 |
| DOI: |
10.32614/CRAN.package.SNPassoc |
| Author: |
Victor Moreno [aut],
Juan R Gonzalez 
[aut],
Dolors Pelegri
[aut, cre] |
| Maintainer: |
Dolors Pelegri <dolors.pelegri at isglobal.org> |
| License: |
GPL-2 | GPL-3 [expanded from: GPL (≥ 2)] |
| URL: |
https://github.com/isglobal-brge/SNPassoc |
| NeedsCompilation: |
no |
| Materials: |
README |
| In views: |
MissingData |
| CRAN checks: |
SNPassoc results |
Documentation:
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