Normalization and difference calling in ChIP-seq data


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Documentation for package ‘normr’ version 1.14.0

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normR-package Enrichment, Difference and Regime Calling in ChIP-seq data.
BamsignalsConfig Container for configuration of read counting with bamsignals in normR
BamsignalsCountConfig Container for configuration of read counting with bamsignals in normR
configPairedEnd Container for configuration of read counting with bamsignals in normR
configSingleEnd Container for configuration of read counting with bamsignals in normR
countConfigPairedEnd Container for configuration of read counting with bamsignals in normR
countConfigPairedEnd-method Container for configuration of read counting with bamsignals in normR
countConfigSingleEnd Container for configuration of read counting with bamsignals in normR
countConfigSingleEnd-method Container for configuration of read counting with bamsignals in normR
differenceCall Difference Calling between conditional ChIP-seq data in normR with diffR
DifferenceCalling Difference Calling between conditional ChIP-seq data in normR with diffR
DifferentialPeakCalling Enrichment, Difference and Regime Calling in ChIP-seq data.
diffR Difference Calling between conditional ChIP-seq data in normR with diffR
diffr Difference Calling between conditional ChIP-seq data in normR with diffR
diffR-generic Difference Calling between conditional ChIP-seq data in normR with diffR
diffR-method Difference Calling between conditional ChIP-seq data in normR with diffR
enrichmentCall Enrichment Calling on ChIP-seq data in normR with enrichR
EnrichmentCalling Enrichment Calling on ChIP-seq data in normR with enrichR
enrichR Enrichment Calling on ChIP-seq data in normR with enrichR
enrichr Enrichment Calling on ChIP-seq data in normR with enrichR
enrichR-generic Enrichment Calling on ChIP-seq data in normR with enrichR
enrichR-method Enrichment Calling on ChIP-seq data in normR with enrichR
exportR Container for a fit done with normR
exportR-method Container for a fit done with normR
getBamsignalsFilter Container for configuration of read counting with bamsignals in normR
getClasses Container for a fit done with normR
getClasses-method Container for a fit done with normR
getCounts Container for a fit done with normR
getCounts-method Container for a fit done with normR
getEnrichment Container for a fit done with normR
getEnrichment-method Container for a fit done with normR
getFilter Container for configuration of read counting with bamsignals in normR
getFilter-method Container for configuration of read counting with bamsignals in normR
getNormRCountConfigFilter Container for configuration of read counting with bamsignals in normR
getPosteriors Container for a fit done with normR
getPosteriors-method Container for a fit done with normR
getPvalues Container for a fit done with normR
getPvalues-method Container for a fit done with normR
getQvalues Container for a fit done with normR
getQvalues-method Container for a fit done with normR
getRanges Container for a fit done with normR
getRanges-method Container for a fit done with normR
length-method Container for a fit done with normR
normR Enrichment, Difference and Regime Calling in ChIP-seq data.
normr Enrichment, Difference and Regime Calling in ChIP-seq data.
NormRCountConfig Container for configuration of read counting with bamsignals in normR
NormRCountConfig-class Container for configuration of read counting with bamsignals in normR
NormRFit Container for a fit done with normR
NormRfit Container for a fit done with normR
normRFit Container for a fit done with normR
normrfit Container for a fit done with normR
NormRFit-class Container for a fit done with normR
PeakCalling Enrichment, Difference and Regime Calling in ChIP-seq data.
plot-method Container for a fit done with normR
plot.NormRFit Container for a fit done with normR
print-method Container for configuration of read counting with bamsignals in normR
print-method Container for a fit done with normR
regimeCall Regime Enrichment Calling for ChIP-seq data in normR with regimeR
RegimeCalling Regime Enrichment Calling for ChIP-seq data in normR with regimeR
regimeR Regime Enrichment Calling for ChIP-seq data in normR with regimeR
regimer Regime Enrichment Calling for ChIP-seq data in normR with regimeR
regimeR-generic Regime Enrichment Calling for ChIP-seq data in normR with regimeR
regimeR-method Regime Enrichment Calling for ChIP-seq data in normR with regimeR
show-method Container for configuration of read counting with bamsignals in normR
show-method Container for a fit done with normR
summary-method Container for a fit done with normR