snpEnrichment: SNPs Enrichment Analysis

Implements classes and methods for large scale SNP enrichment analysis (e.g. SNPs associated with genes expression in a GWAS signal).

AuthorMickael Canouil [aut, cre], Loic Yengo [ctb]
Date of publication2015-10-01 23:18:57
MaintainerMickael Canouil <mickael.canouil@cnrs.fr>
LicenseGPL (>= 2)
Version1.7.0
https://github.com/mcanouil/snpEnrichment

View on CRAN

Files in this package

snpEnrichment
snpEnrichment/inst
snpEnrichment/inst/example.R
snpEnrichment/inst/extdata
snpEnrichment/inst/extdata/Signal
snpEnrichment/inst/extdata/Signal/toySignal.txt
snpEnrichment/inst/extdata/List
snpEnrichment/inst/extdata/List/Chrom15-toyList.txt
snpEnrichment/inst/extdata/List/Chrom18-toyList.txt
snpEnrichment/inst/extdata/List/Chrom6-toyList.txt
snpEnrichment/inst/extdata/List/Chrom21-toyList.txt
snpEnrichment/inst/extdata/List/Chrom3-toyList.txt
snpEnrichment/inst/extdata/List/Chrom2-toyList.txt
snpEnrichment/inst/extdata/List/Chrom4-toyList.txt
snpEnrichment/inst/extdata/List/Chrom7-toyList.txt
snpEnrichment/inst/extdata/List/Chrom8-toyList.txt
snpEnrichment/inst/extdata/List/Chrom12-toyList.txt
snpEnrichment/inst/extdata/List/Chrom20-toyList.txt
snpEnrichment/inst/extdata/List/Chrom10-toyList.txt
snpEnrichment/inst/extdata/List/Chrom9-toyList.txt
snpEnrichment/inst/extdata/List/Chrom19-toyList.txt
snpEnrichment/inst/extdata/List/Chrom14-toyList.txt
snpEnrichment/inst/extdata/List/Chrom22-toyList.txt
snpEnrichment/inst/extdata/List/Chrom13-toyList.txt
snpEnrichment/inst/extdata/List/Chrom11-toyList.txt
snpEnrichment/inst/extdata/List/Chrom17-toyList.txt
snpEnrichment/inst/extdata/List/Chrom5-toyList.txt
snpEnrichment/inst/extdata/List/Chrom1-toyList.txt
snpEnrichment/inst/extdata/List/Chrom16-toyList.txt
snpEnrichment/inst/extdata/Exclude
snpEnrichment/inst/extdata/Exclude/toyExclude.txt
snpEnrichment/inst/extdata/snpInfo
snpEnrichment/inst/extdata/snpInfo/Chrom6-toy.fam
snpEnrichment/inst/extdata/snpInfo/Chrom9-toy.bim
snpEnrichment/inst/extdata/snpInfo/Chrom11-toy.fam
snpEnrichment/inst/extdata/snpInfo/Chrom17-toy.bim
snpEnrichment/inst/extdata/snpInfo/Chrom5-toy.bim
snpEnrichment/inst/extdata/snpInfo/Chrom15-toy.fam
snpEnrichment/inst/extdata/snpInfo/Chrom21-toy.bed
snpEnrichment/inst/extdata/snpInfo/Chrom21-toy.fam
snpEnrichment/inst/extdata/snpInfo/Chrom3-toy.bim
snpEnrichment/inst/extdata/snpInfo/Chrom18-toy.bim
snpEnrichment/inst/extdata/snpInfo/Chrom20-toy.bed
snpEnrichment/inst/extdata/snpInfo/Chrom4-toy.fam
snpEnrichment/inst/extdata/snpInfo/Chrom5-toy.bed
snpEnrichment/inst/extdata/snpInfo/Chrom12-toy.bim
snpEnrichment/inst/extdata/snpInfo/Chrom4-toy.bim
snpEnrichment/inst/extdata/snpInfo/Chrom22-toy.fam
snpEnrichment/inst/extdata/snpInfo/Chrom15-toy.bim
snpEnrichment/inst/extdata/snpInfo/Chrom20-toy.fam
snpEnrichment/inst/extdata/snpInfo/Chrom9-toy.bed
snpEnrichment/inst/extdata/snpInfo/Chrom1-toy.bed
snpEnrichment/inst/extdata/snpInfo/Chrom15-toy.bed
snpEnrichment/inst/extdata/snpInfo/Chrom2-toy.fam
snpEnrichment/inst/extdata/snpInfo/Chrom13-toy.bim
snpEnrichment/inst/extdata/snpInfo/Chrom14-toy.bed
snpEnrichment/inst/extdata/snpInfo/Chrom21-toy.bim
snpEnrichment/inst/extdata/snpInfo/Chrom8-toy.bim
snpEnrichment/inst/extdata/snpInfo/Chrom10-toy.fam
snpEnrichment/inst/extdata/snpInfo/Chrom16-toy.bed
snpEnrichment/inst/extdata/snpInfo/Chrom14-toy.bim
snpEnrichment/inst/extdata/snpInfo/Chrom2-toy.bim
snpEnrichment/inst/extdata/snpInfo/Chrom14-toy.fam
snpEnrichment/inst/extdata/snpInfo/Chrom19-toy.fam
snpEnrichment/inst/extdata/snpInfo/Chrom7-toy.bim
snpEnrichment/inst/extdata/snpInfo/Chrom17-toy.bed
snpEnrichment/inst/extdata/snpInfo/Chrom9-toy.fam
snpEnrichment/inst/extdata/snpInfo/Chrom1-toy.bim
snpEnrichment/inst/extdata/snpInfo/Chrom12-toy.fam
snpEnrichment/inst/extdata/snpInfo/Chrom11-toy.bim
snpEnrichment/inst/extdata/snpInfo/Chrom16-toy.bim
snpEnrichment/inst/extdata/snpInfo/Chrom8-toy.fam
snpEnrichment/inst/extdata/snpInfo/Chrom4-toy.bed
snpEnrichment/inst/extdata/snpInfo/Chrom2-toy.bed
snpEnrichment/inst/extdata/snpInfo/Chrom1-toy.fam
snpEnrichment/inst/extdata/snpInfo/Chrom3-toy.fam
snpEnrichment/inst/extdata/snpInfo/Chrom10-toy.bim
snpEnrichment/inst/extdata/snpInfo/Chrom18-toy.bed
snpEnrichment/inst/extdata/snpInfo/Chrom6-toy.bed
snpEnrichment/inst/extdata/snpInfo/Chrom19-toy.bed
snpEnrichment/inst/extdata/snpInfo/Chrom16-toy.fam
snpEnrichment/inst/extdata/snpInfo/Chrom6-toy.bim
snpEnrichment/inst/extdata/snpInfo/Chrom8-toy.bed
snpEnrichment/inst/extdata/snpInfo/Chrom18-toy.fam
snpEnrichment/inst/extdata/snpInfo/Chrom5-toy.fam
snpEnrichment/inst/extdata/snpInfo/Chrom10-toy.bed
snpEnrichment/inst/extdata/snpInfo/Chrom17-toy.fam
snpEnrichment/inst/extdata/snpInfo/Chrom13-toy.fam
snpEnrichment/inst/extdata/snpInfo/Chrom12-toy.bed
snpEnrichment/inst/extdata/snpInfo/Chrom22-toy.bed
snpEnrichment/inst/extdata/snpInfo/Chrom3-toy.bed
snpEnrichment/inst/extdata/snpInfo/Chrom19-toy.bim
snpEnrichment/inst/extdata/snpInfo/Chrom7-toy.fam
snpEnrichment/inst/extdata/snpInfo/Chrom7-toy.bed
snpEnrichment/inst/extdata/snpInfo/Chrom13-toy.bed
snpEnrichment/inst/extdata/snpInfo/Chrom22-toy.bim
snpEnrichment/inst/extdata/snpInfo/Chrom11-toy.bed
snpEnrichment/inst/extdata/snpInfo/Chrom20-toy.bim
snpEnrichment/tests
snpEnrichment/tests/RUN-TEST_snpEnrichment.R
snpEnrichment/NAMESPACE
snpEnrichment/data
snpEnrichment/data/toyEnrichment.RData
snpEnrichment/data/transcript.txt.xz
snpEnrichment/R
snpEnrichment/R/chromosome.R snpEnrichment/R/enrichment.R snpEnrichment/R/Global.R snpEnrichment/R/SNP.R
snpEnrichment/MD5
snpEnrichment/DESCRIPTION
snpEnrichment/ChangeLog
snpEnrichment/man
snpEnrichment/man/getEnrichSNP-methods.Rd snpEnrichment/man/snpEnrichment-internal.Rd snpEnrichment/man/Enrichment-class.Rd snpEnrichment/man/plot-methods.Rd snpEnrichment/man/mclapply2.Rd snpEnrichment/man/snpEnrichment-package.Rd snpEnrichment/man/is.enrichment.Rd snpEnrichment/man/compareEnrichment.Rd snpEnrichment/man/initFiles.Rd snpEnrichment/man/toyEnrichment-dataset.Rd snpEnrichment/man/readEnrichment.Rd snpEnrichment/man/reSample-methods.Rd snpEnrichment/man/writeLD.Rd snpEnrichment/man/GC.Rd snpEnrichment/man/transcript-dataset.Rd snpEnrichment/man/Chromosome-class.Rd snpEnrichment/man/print-methods.Rd snpEnrichment/man/is.chromosome.Rd snpEnrichment/man/excludeSNP-methods.Rd snpEnrichment/man/EnrichSNP-class.Rd

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