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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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Install

install.packages('snpEnrichment')

Monthly Downloads

96

Version

1.7.0

License

GPL (>= 2)

Issues

0

Pull Requests

0

Stars

3

Forks

2

Maintainer

Mickael Canouil

Last Published

October 1st, 2015

Functions in snpEnrichment (1.7.0)

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