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snpEnrichment (version 1.6.3)
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
102
Version
1.6.3
License
GPL (>= 2)
Issues
0
Pull Requests
0
Stars
3
Forks
2
Repository
https://github.com/mcanouil/snpEnrichment
Maintainer
Mickael Canouil
Last Published
February 9th, 2015
Functions in snpEnrichment (1.6.3)
Search functions
Chromosome-class
Class
Chromosome
compareEnrichment
Compare enrichment analysis between two SNPs list
Enrichment-class
Class
Enrichment
transcript-dataset
Transcript information in order to check the CIS status for SNPs
is.enrichment
Is an Enrichment object
toyEnrichment-dataset
Toy dataset with SNP data
initFiles
Initialize files for enrichment analysis
snpEnrichment-internal
~ Internal: snpEnrichment objects and methods ~
reSample
Compute enrichment analysis on an
Enrichment
object
snpEnrichment-package
~ Overview: SNPs enrichment analysis ~
EnrichSNP-class
Class
"
EnrichSNP
"
GC
Full Garbage Collection
getEnrichSNP
Get all eSNP/xSNP which are enriched
plot-methods
Plot method (S4) for
Enrichment
object
writeLD
Linkage Disequilibrium (LD) computation with PLINK
readEnrichment
Read and create EnrichmentRatio object
print-methods
Print method (S4)
excludeSNP
Exclude SNPs from Enrichment analysis
is.chromosome
Is an Chromosome object
mclapply2
Parallel Versions of
lapply
with cores and memory control