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snpEnrichment (version 1.6.0)
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
1.6.0
License
GPL (>= 2)
Issues
0
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0
Stars
3
Forks
2
Repository
https://github.com/mcanouil/snpEnrichment
Maintainer
Mickael Canouil
Last Published
November 4th, 2014
Functions in snpEnrichment (1.6.0)
Search functions
plot-methods
Plot method (S4) for
Enrichment
object
excludeSNP
Exclude SNPs from Enrichment analysis
print-methods
Print method (S4)
readEnrichment
Read and create EnrichmentRatio object
snpEnrichment-internal
~ Internal: snpEnrichment objects and methods ~
reSample
Compute enrichment analysis on an
Enrichment
object
is.chromosome
Is an Chromosome object
writeLD
Linkage Disequilibrium (LD) computation with PLINK
Chromosome-class
Class
Chromosome
GC
Full Garbage Collection
mclapply2
Parallel Versions of
lapply
with cores and memory control
is.enrichment
Is an Enrichment object
EnrichSNP-class
Class
"
EnrichSNP
"
Enrichment-class
Class
Enrichment
getEnrichSNP
Get all eSNP/xSNP which are enriched
snpEnrichment-package
~ Overview: SNPs enrichment analysis ~
compareEnrichment
Compare enrichment analysis between two SNPs list
initFiles
Initialize files for enrichment analysis
transcript-dataset
Transcript information in order to check the CIS status for SNPs
toyEnrichment-dataset
Toy dataset with SNP data