RLSeq: An analysis package for R-loop mapping data


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Documentation for package ‘RLSeq’ version 1.4.1

Help Pages

analyzeRLFS Analyze RLFS
auxdata Auxiliary Data
available_genomes Available Genomes
checkRLFSAnno Check RLFS
corrAnalyze Analyze Correlations
corrHeatmap Plot Correlation Results
featureEnrich Test Genomic Feature Enrichment
feature_ggplot Feature ggplot
geneAnnotation Annotate R-Loops with Genes
genomeMasks Genome Masks
getChromSizes Get Chrom Sizes
getGSSignal Get GS Signal
getRLFSAnno Get RLFS
noiseAnalyze Analyze sample noise
noiseComparisonPlot Creates a metaplot for comparing noise analysis results with RLBase
peak_stats Build peak statistics tibble
plotEnrichment Plot Enrichment Test Results
plotFingerprint Plot noise analysis results as a fingerprint plot
plotRLFSRes Plot RLFS analysis results
plotRLRegionOverlap Plot RL-Region overlap with RLRanges
plotTxFeatureOverlap Plot Transcript Feature Overlap
predictCondition Predict Condition
randomWindows Random Genomic Windows
report RLSeq Report
rlbaseNoiseAnalyze RLBase Sample Noise Analysis Results
RLRanges Construct RLRanges Dataset
RLRanges-class Construct RLRanges Dataset
RLRangesFromRLBase Access RLBase samples as RLRanges
rlRegionTest R-Loop region test
rlresult RLSeq Results
RLResults RLSeq Results
RLResults-class RLSeq Results
rlsampleTxOl RLBase Sample Transcript Feature Overlaps
RLSeq RLSeq
tableToRegions Table to Regions
txFeatureOverlap Calculate overlap with transcript features
urlExists Check if URL exists