# SNPs Enrichment Analysis

## Documentation for package ‘snpEnrichment’ version 1.7.0

- DESCRIPTION file.

## Help Pages

snpEnrichment-package | ~ Overview: SNPs enrichment analysis ~
Chromosome | Class 'Chromosome'
chromosome | Class 'Chromosome'
Chromosome-class | Class 'Chromosome'
chromosome-method | Class 'Chromosome'
chromosome-methods | Class 'Chromosome'
compareEnrichment | Compare enrichment analysis between two SNPs list
compareEnrichment-method | Compare enrichment analysis between two SNPs list
compareEnrichment-methods | Compare enrichment analysis between two SNPs list
Enrichment | Class 'Enrichment'
enrichment | Class 'Enrichment'
Enrichment-class | Class 'Enrichment'
enrichment-method | Class 'Enrichment'
enrichment-methods | Class 'Enrichment'
EnrichSNP | Class '"EnrichSNP"'
EnrichSNP-class | Class '"EnrichSNP"'
excludeSNP | Exclude SNPs from Enrichment analysis
excludeSNP-method | Exclude SNPs from Enrichment analysis
excludeSNP-methods | Exclude SNPs from Enrichment analysis
GC | Full Garbage Collection
getEnrichSNP | Get all eSNP/xSNP which are enriched
getEnrichSNP-method | Get all eSNP/xSNP which are enriched
getEnrichSNP-methods | Get all eSNP/xSNP which are enriched
initFiles | Initialize files for enrichment analysis
is.chromosome | Is an Chromosome object
is.chromosome-method | Is an Chromosome object
is.chromosome-methods | Is an Chromosome object
is.enrichment | Is an Enrichment object
is.enrichment-method | Is an Enrichment object
is.enrichment-methods | Is an Enrichment object
mclapply2 | Parallel Versions of 'lapply' with cores and memory control
plot | Plot method (S4) for 'Enrichment' object
plot-method | Plot method (S4) for 'Enrichment' object
plot-methods | Plot method (S4) for 'Enrichment' object
print | Print method (S4)
print-method | Class '"EnrichSNP"'
print-method | Print method (S4)
print-methods | Print method (S4)
readEnrichment | Read and create EnrichmentRatio object
reSample | Compute enrichment analysis on an 'Enrichment' object
reSample-method | Compute enrichment analysis on an 'Enrichment' object
reSample-methods | Compute enrichment analysis on an 'Enrichment' object
show-method | Class 'Chromosome'
show-method | Class '"EnrichSNP"'
show-method | Class 'Enrichment'
snpEnrichment | ~ Overview: SNPs enrichment analysis ~
toyEnrichment | Toy dataset with SNP data
toyEnrichment-dataset | Toy dataset with SNP data
transcript | Transcript information in order to check the CIS status for SNPs
transcript-dataset | Transcript information in order to check the CIS status for SNPs
writeLD | Linkage Disequilibrium (LD) computation with PLINK
[-method | Class 'Chromosome'
[-method | Class '"EnrichSNP"'
[-method | Class 'Enrichment'
[<--method | Class 'Chromosome'
[<--method | Class '"EnrichSNP"'
[<--method | Class 'Enrichment'