Integrating Functional Non-coding Datasets with Genetic Association Studies to Identify Candidate Regulatory SNPs

Bioconductor version: Release (2.11)

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> and Houtan Noushmehr, PhD <houtan at>

Maintainer: Simon G. Coetzee <simon at>

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PDF R Script FunciSNP Vignette
PDF UCSC_genomeviewer_glioma.pdf
PDF   Reference Manual
Text   NEWS


biocViews Annotation, DataImport, DataRepresentation, Infrastructure, SequenceMatching, Software
Version 1.1.8
In Bioconductor since BioC 2.11 (R-2.15)
License GPL-3
Depends R (>= 2.14.0), ggplot2, TxDb.Hsapiens.UCSC.hg19.knownGene,
Imports AnnotationDbi, IRanges, Rsamtools(>= 1.6.1), rtracklayer(>= 1.14.1), methods, ChIPpeakAnno(>= 2.2.0), GenomicRanges, VariantAnnotation, plyr,, snpStats, ggplot2 (>= 0.9.0), reshape (>= 0.8.4), scales
System Requirements
Depends On Me
Imports Me
Suggests Me

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