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snpEnrichment (version 1.7.0)
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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1.7.0
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Install
install.packages('snpEnrichment')
Monthly Downloads
111
Version
1.7.0
License
GPL (>= 2)
Issues
0
Pull Requests
0
Stars
3
Forks
2
Repository
https://github.com/mcanouil/snpEnrichment
Maintainer
Mickael Canouil
Last Published
October 1st, 2015
Functions in snpEnrichment (1.7.0)
Search functions
is.chromosome
Is an Chromosome object
compareEnrichment
Compare enrichment analysis between two SNPs list
mclapply2
Parallel Versions of
lapply
with cores and memory control
GC
Full Garbage Collection
reSample
Compute enrichment analysis on an
Enrichment
object
plot-methods
Plot method (S4) for
Enrichment
object
getEnrichSNP
Get all eSNP/xSNP which are enriched
readEnrichment
Read and create EnrichmentRatio object
print-methods
Print method (S4)
Chromosome-class
Class
Chromosome
EnrichSNP-class
Class
"
EnrichSNP
"
Enrichment-class
Class
Enrichment
is.enrichment
Is an Enrichment object
snpEnrichment-package
~ Overview: SNPs enrichment analysis ~
transcript-dataset
Transcript information in order to check the CIS status for SNPs
snpEnrichment-internal
~ Internal: snpEnrichment objects and methods ~
toyEnrichment-dataset
Toy dataset with SNP data
writeLD
Linkage Disequilibrium (LD) computation with PLINK
initFiles
Initialize files for enrichment analysis
excludeSNP
Exclude SNPs from Enrichment analysis