Man pages for coregenomics/groHMM
GRO-seq Analysis Pipeline

breakTranscriptsOnGenesbreakTranscriptsOnGenes Breaks transcripts on genes
combineTranscriptscombineTranscripts Combines transcripts.
detectTranscriptsdetectTranscripts detects transcripts de novo using a...
evaluateHMMInAnnotationsevaluateHMM Evaluates HMM calling.
expressedGenesFunction identifies expressed features using the methods...
getTxDensitygetTxDensity Calculates transcript density.
groHMM-packagegroHMM: GRO-seq Analysis Pipeline
limitToXkblimitToXkb truncates a set of genomic intervals at a...
makeConsensusAnnotationsmakeConsensusAnnotations Makes a consensus annotation
metaGeneReturns a histogram of the number of reads in each section of...
pausingIndexReturns the pausing index for different genes. TODO:...
polymeraseWaveGiven GRO-seq data, identifies the location of the polymerase...
RgammaMLERgammaMLE fits a gamma distribution to a specified data...
RnormRnorm fits a normal distribution to a specified data vector...
Rnorm.expRnorm.exp fits a normal+exponential distribution to a...
runMetaGeneRuns meta gene analysis for sense and anti-sense direction.
windowAnalysiswindowAnalysis Returns a vector of integers representing the...
coregenomics/groHMM documentation built on Oct. 30, 2017, 9:10 a.m.