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snpEnrichment (version 1.1-0)
SNPs enrichment analysis
Description
Implements classes and methods for large scale SNP enrichment analysis (e.g. SNPs associated with genes expression in a GWAS signal)
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Install
install.packages('snpEnrichment')
Monthly Downloads
111
Version
1.1-0
License
GPL (>= 2)
Maintainer
Mickael Canouil
Last Published
May 29th, 2013
Functions in snpEnrichment (1.1-0)
Search functions
GC
Full Garbage Collection
toyM1-dataset
Toy dataset with SNP data
is.chromosome
Is an Chromosome object
snpEnrichment-internal
~ Internal: snpEnrichment objects and methods ~
is.enrichment
Is an Enrichment object
readEnrichment
Read and create EnrichmentRatio object
mclapply2
Parallel Versions of
lapply
with cores and memory control
initFiles
Initialize files for enrichment analysis
snpEnrichment-package
~ Overview: SNPs enrichment analysis ~
transcript-dataset
Transcript information in order to check the CIS status for SNPs
toyM2-dataset
Toy dataset with SNP data
reSample
Compute enrichment analysis on an
Enrichment
object
writeLD
Linkage Disequilibrium (LD) computation with PLINK
Enrichment-class
Class
Enrichment
Chromosome-class
Class
Chromosome
SNP-class
Class
"
SNP
"
compareEnrichment
Compare enrichment analysis between two SNPs list
excludeSNP
Exclude SNPs from Enrichment analysis
plot-methods
Plot method (S4) for
Enrichment
object
summary-methods
Summary method (S4)