InternalFunctions {EventPointer} | R Documentation |
Internal functions used by EventPointer in the different steps of the algorithm
annotateEvents(Events, PSR_Gene, Junc_Gene, Gxx) annotateEventsMultipath(Events, PSR_Gene, Junc_Gene, Gxx, paths) AnnotateEvents_RNASeq(Events) AnnotateEvents_RNASeq_MultiPath(Events, paths) AnnotateEvents_KLL(Events, Gxx, GenI) ClassifyEvents(SG, Events, twopaths) estimateAbsoluteConc(Signal1, Signal2, SignalR, lambda) estimateAbsoluteConcmultipath(datos, lambda = 0.1) findTriplets(randSol, tol = 1e-08) findTriplets2(Incidence, paths = 2, randSol) GetCounts(Events, sg_txiki, type = "counts") GetCountsMP(Events, sg_txiki, type = "counts") getEventPaths(Events, SG) getEventMultiPaths(Events, SG, twopaths, paths) GetIGVPaths(EventInfo, SG_Edges) getPSI(ExFit, lambda = 0.1) getPSI_RNASeq(Result, lambda = 0.1) getPSI_RNASeq_MultiPath(Result, lambda = 0.1) getRandomFlow(Incidence, ncol = 1) IHsummarization(Pv1, t1, Pv2, t2, coherence = "Opposite") pdist2(X, Y) PrepareCountData(Result) PrepareProbes(Probes, Class) PrepareOutput(Result, Final) SG_Info(SG_Gene) SG_creation(SG_Gene) SG_creation_RNASeq(SG_Gene) WriteGTF(PATH, Data, Probes, Paths) WriteGTF_RNASeq(PATH, Data, Paths) flat2Cdf(file, chipType, tags = NULL, rows = 2560, cols = 2560, verbose = 10, xynames = c("X", "Y"), gcol = 5, ucol = 6, splitn = 4, col.class = c("integer", "character")[c(1, 1, 1, 2, 2, 2)], Directory = getwd(), ...) uniquefast(X) filterimagine(Info, paths) transfromedge(SG, SG_Gene) sacartranscritos(edgetr, events) comprobaciontranscritos2(Result) convertToSGFeatures2(x, coerce = FALSE, merge = FALSE) processFeatures2(features, coerce = FALSE, merge = FALSE) annotate2(query, subject) annotateFeatures2(query, subject) mergeExonsTerminal2(features, min_n_sample = 1) get_beta(combboots, incrPSI_original, ncontrastes) get_table(PSI_arrayP, nevents, totchunk, chunk, nsamples, incrPSI_original, V, nboot, nbootin, ncontrastes) get_YB(PSI_arrayS, l, nsamples, I, J, CTEind) getInfo(table, ncontrast)
Internal outputs