| PCASamples |
Man page
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| PCASamples,methylBase-method |
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| [ |
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| [,methylBase-method |
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| [,methylDiff-method |
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| [,methylRaw-method |
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| adjust.methylC |
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| adjust.methylC,methylRaw,methylRaw-method |
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| adjust.methylC,methylRawList,methylRawList-method |
Man page
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| annotate.WithFeature |
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| annotate.WithFeature,GRanges,GRanges-method |
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| annotate.WithFeature,methylDiff,GRanges-method |
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| annotate.WithFeature.Flank |
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| annotate.WithFeature.Flank,GRanges,GRanges,GRanges-method |
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| annotate.WithFeature.Flank,methylDiff,GRanges,GRanges-method |
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| annotate.WithGenicParts |
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| annotate.WithGenicParts,GRanges,GRangesList-method |
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| annotate.WithGenicParts,methylDiff,GRangesList-method |
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| annotationByFeature |
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| annotationByFeature-class |
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| annotationByGenicParts |
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| annotationByGenicParts-class |
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| assocComp |
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| bedgraph |
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| bedgraph,methylDiff-method |
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| bedgraph,methylRaw-method |
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| bedgraph,methylRawList-method |
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| calculateDiffMeth |
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| calculateDiffMeth,methylBase-method |
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| clusterSamples |
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| clusterSamples,methylBase-method |
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| diffMethPerChr |
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| diffMethPerChr,methylDiff-method |
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| extract |
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| filterByCoverage |
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| filterByCoverage,methylRaw-method |
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| filterByCoverage,methylRawList-method |
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| get.methylDiff |
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| get.methylDiff,methylDiff-method |
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| getAssembly |
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| getAssembly,methylBase-method |
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| getAssembly,methylDiff-method |
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| getAssembly,methylRaw-method |
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| getAssociationWithTSS |
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| getAssociationWithTSS,annotationByGenicParts-method |
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| getContext |
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| getContext,methylBase-method |
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| getContext,methylDiff-method |
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| getContext,methylRaw-method |
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| getCorrelation |
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| getCorrelation,-methods |
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| getCorrelation,methylBase-method |
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| getCorrelation-method |
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| getCoverageStats |
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| getCoverageStats,methylRaw |
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| getCoverageStats,methylRaw-method |
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| getData |
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| getData,-methods |
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| getData,methylBase-method |
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| getData,methylDiff-method |
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| getData,methylRaw-method |
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| getData-method |
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| getFeatsWithTargetsStats |
Man page
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| getFeatsWithTargetsStats,annotationByFeature-method |
Man page
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| getFlanks |
Man page
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| getFlanks,GRanges-method |
Man page
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| getMembers |
Man page
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| getMembers,annotationByFeature-method |
Man page
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| getMethylationStats |
Man page
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| getMethylationStats,methylRaw-method |
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| getTargetAnnotationStats |
Man page
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| getTargetAnnotationStats,annotationByFeature-method |
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| methylBase |
Man page
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| methylBase-class |
Man page
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| methylBase.obj |
Man page
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| methylDiff |
Man page
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| methylDiff-class |
Man page
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| methylDiff.obj |
Man page
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| methylRaw |
Man page
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| methylRaw-class |
Man page
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| methylRawList |
Man page
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| methylRawList-class |
Man page
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| methylRawList.obj |
Man page
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| normalizeCoverage |
Man page
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| normalizeCoverage,methylRawList-method |
Man page
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| percMethylation |
Man page
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| percMethylation,methylBase-method |
Man page
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| plotTargetAnnotation |
Man page
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| plotTargetAnnotation,annotationByFeature-method |
Man page
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| pool |
Man page
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| pool,methylBase-method |
Man page
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| read |
Man page
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| read,character,character,character-method |
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| read,list,list,character-method |
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| read.bed |
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| read.bed,character-method |
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| read.bismark |
Man page
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| read.bismark,character,character,character-method |
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| read.bismark,list,list,character-method |
Man page
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| read.feature.flank |
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| read.feature.flank,character-method |
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| read.transcript.features |
Man page
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| read.transcript.features,character-method |
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| reconstruct |
Man page
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| regionCounts |
Man page
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| regionCounts,methylBase,GRanges-method |
Man page
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| regionCounts,methylRaw,GRanges-method |
Man page
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| regionCounts,methylRaw,GRangesList-method |
Man page
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| regionCounts,methylRawList,GRanges-method |
Man page
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| regionCounts,methylRawList,GRangesList-method |
Man page
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| removeComp |
Man page
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| reorganize |
Man page
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| reorganize,methylBase-method |
Man page
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| reorganize,methylRawList-method |
Man page
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| select |
Man page
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| select,methylBase-method |
Man page
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| select,methylDiff-method |
Man page
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| select,methylRaw-method |
Man page
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| show |
Man page
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| show,annotationByFeature-method |
Man page
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| show,annotationByGenicParts-method |
Man page
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| show,methylBase |
Man page
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| show,methylDiff |
Man page
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| show,methylRaw |
Man page
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| show,methylRawList |
Man page
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| tileMethylCounts |
Man page
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| tileMethylCounts,methylBase-method |
Man page
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| tileMethylCounts,methylRaw-method |
Man page
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| tileMethylCounts,methylRawList-method |
Man page
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| unite |
Man page
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| unite,-methods |
Man page
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| unite,methylRawList-method |
Man page
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| updateMethObject |
Man page
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| updateMethObject,methylBase-method |
Man page
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| updateMethObject,methylDiff-method |
Man page
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| updateMethObject,methylRaw-method |
Man page
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| updateMethObject,methylRawList-method |
Man page
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