DOI: 10.18129/B9.bioc.FunciSNP
This package is for version 3.11 of Bioconductor;
for the stable, up-to-date release version, see
FunciSNP.
Integrating Functional Non-coding Datasets with Genetic Association Studies to Identify Candidate Regulatory SNPs
Bioconductor version: 3.11
FunciSNP integrates information from GWAS, 1000genomes and chromatin feature to identify functional SNP in coding or non-coding regions.
Author: Simon G. Coetzee <simon at simoncoetzee.com> and Houtan Noushmehr, PhD <houtan at usp.br>
Maintainer: Simon G. Coetzee <simon at simoncoetzee.com>
Citation (from within R,
enter citation("FunciSNP")):
Installation
To install this package, start R (version
“4.0”) and enter:
if (!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("FunciSNP")
For older versions of R, please refer to the appropriate
Bioconductor release.
Documentation
To view documentation for the version of this package installed
in your system, start R and enter:
browseVignettes("FunciSNP")
Details
| biocViews | Annotation, DataImport, DataRepresentation, Infrastructure, SequenceMatching, Software |
| Version | 1.32.0 |
| In Bioconductor since | BioC 2.11 (R-2.15) (8 years) |
| License | GPL-3 |
| Depends | R (>= 2.14.0), ggplot2, TxDb.Hsapiens.UCSC.hg19.knownGene, FunciSNP.data |
| Imports | methods, BiocGenerics, Biobase, S4Vectors, IRanges, GenomicRanges, Rsamtools(>= 1.6.1), rtracklayer(>= 1.14.1), ChIPpeakAnno(>= 2.2.0), VariantAnnotation, plyr, snpStats, ggplot2 (>= 0.9.0), reshape (>= 0.8.4), scales |
| LinkingTo | |
| Suggests | org.Hs.eg.db |
| SystemRequirements | |
| Enhances | parallel |
| URL | coetzeeseq.usc.edu/publication/Coetzee_SG_et_al_2012/ |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report |
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