CorrelatedSNPs-class {FunciSNP} | R Documentation |
"CorrelatedSNPs"
Class for CorrelatedSNPs
## S4 method for signature 'CorrelatedSNPs' alt.allele(x) ## S4 replacement method for signature 'CorrelatedSNPs' alt.allele(x) <- value ## S4 method for signature 'CorrelatedSNPs' chr(x) ## S4 replacement method for signature 'CorrelatedSNPs' chr(x) <- value ## S4 method for signature 'CorrelatedSNPs' overlapping.features(x) ## S4 replacement method for signature 'CorrelatedSNPs' overlapping.features(x) <- value ## S4 method for signature 'CorrelatedSNPs' pop.genotype(x, population) ## S4 replacement method for signature 'CorrelatedSNPs' pop.genotype(x) <- value ## S4 method for signature 'CorrelatedSNPs' position(x) ## S4 replacement method for signature 'CorrelatedSNPs' position(x) <- value ## S4 method for signature 'CorrelatedSNPs' ref.allele(x) ## S4 replacement method for signature 'CorrelatedSNPs' ref.allele(x) <- value ## S4 method for signature 'CorrelatedSNPs' snpid(x) ## S4 replacement method for signature 'CorrelatedSNPs' snpid(x) <- value
x |
The CorrelatedSNPs object from/on which to get/set snp information. |
value |
Examine the section "Slots" for the values taken by each method. |
population |
Population for which to set/get genotype information, either "AFR", "AMR", "ASN", "EUR" or "ALL". |
Objects can be created by calls of the form new("CorrelatedSNPs", ...)
.
chromosome
:Object of class "integer"
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position
:Object of class "integer"
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snpid
:Object of class "character"
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ref.allele
:Object of class "character"
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alt.allele
:Object of class "character"
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overlapping.features
:Object of class "GRanges"
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genotype
:Object of class "CorrGeno"
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signature(x = "CorrelatedSNPs")
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signature(x = "CorrelatedSNPs")
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signature(x = "CorrelatedSNPs")
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signature(x = "CorrelatedSNPs")
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signature(x = "CorrelatedSNPs")
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signature(x = "CorrelatedSNPs")
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signature(x = "CorrelatedSNPs")
: ...
signature(x = "CorrelatedSNPs")
: ...
signature(x = "CorrelatedSNPs")
: ...
signature(x = "CorrelatedSNPs")
: ...
signature(x = "CorrelatedSNPs")
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signature(x = "CorrelatedSNPs")
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signature(x = "CorrelatedSNPs")
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signature(x = "CorrelatedSNPs")
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NA
Simon G. Coetzee (maintainer: scoetzee@gmail.com); Houtan Noushmehr, PhD (houtan@usp.br)
SG. Coetzee, SK. Rhie, BP. Berman, GA. Coetzee and H. Noushmehr, FunciSNP: An R/Bioconductor Tool Integrating Functional Non-coding Datasets with Genetic Association Studies to Identify Candidate Regulatory SNPs., Nucleic Acids Research, In press, 2012 (doi:10.1093/nar/gks542).
getFSNPs
, FunciSNPplot
, FunciSNPAnnotateSummary
, FunciSNPtable
, FunciSNPbed
showClass("CorrelatedSNPs")