gQTLBase: infrastructure for eQTL, mQTL and similar studies


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Documentation for package ‘gQTLBase’ version 1.2.1

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gQTLBase-package gQTLBase: infrastructure for eQTL, mQTL and similar studies
balancedFeatList split featurenames of SummarizedExperiment according to tiling, or to achieve simple balance within seqnames
ciseStore Class '"ciseStore"'
ciseStore-class Class '"ciseStore"'
describeByFilts collect basic descriptive statistics on ciseStore instances
describeStore collect basic descriptive statistics on ciseStore instances
extractByProbes retrieve eqtlTest results from a ciseStore instance
extractByProbes-method retrieve eqtlTest results from a ciseStore instance
extractByRanges retrieve eqtlTest results from a ciseStore instance
extractByRanges-method retrieve eqtlTest results from a ciseStore instance
extractBySymbols retrieve eqtlTest results from a ciseStore instance
extractBySymbols-method retrieve eqtlTest results from a ciseStore instance
gQTLBase gQTLBase: infrastructure for eQTL, mQTL and similar studies
loadAndFilterResult use batchMapResults infrastructure to process results in a ciseStore instance
matprint gQTLBase: infrastructure for eQTL, mQTL and similar studies
mergeCIstates merge ChromImpute chromatin states, or GWAS hit indicators, to a GRanges
mergeGWhits merge ChromImpute chromatin states, or GWAS hit indicators, to a GRanges
show collect basic descriptive statistics on ciseStore instances
show-method Class '"ciseStore"'
show-method collect basic descriptive statistics on ciseStore instances
storeApply apply a function over job results in a ciseStore instance
storeDescription-class collect basic descriptive statistics on ciseStore instances
storeMapResults use batchMapResults infrastructure to process results in a ciseStore instance
storeToFf extract a vector from store results as ff (out of memory reference); support statistical reductions
ufeatByTiling split featurenames of SummarizedExperiment according to tiling, or to achieve simple balance within seqnames