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| NumericMatrix | getSingleCellExpressionByGate (XPtr< GatingSet > gs, string sampleName, List markers_pops, NumericMatrix data, CharacterVector markers, bool threshold) |
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| RcppExport SEXP | flowWorkspace_getSingleCellExpressionByGate (SEXP gsSEXP, SEXP sampleNameSEXP, SEXP markers_popsSEXP, SEXP dataSEXP, SEXP markersSEXP, SEXP thresholdSEXP) |
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| NumericMatrix | getSingleCellExpression (XPtr< GatingSet > gs, string sampleName, vector< string > pops, NumericMatrix data, CharacterVector markers, bool threshold) |
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| RcppExport SEXP | flowWorkspace_getSingleCellExpression (SEXP gsSEXP, SEXP sampleNameSEXP, SEXP popsSEXP, SEXP dataSEXP, SEXP markersSEXP, SEXP thresholdSEXP) |
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| Rcpp::List | getPopCounts (Rcpp::XPtr< GatingSet > gsPtr, StringVec sampleNames, StringVec subpopulation, bool flowJo, bool isFullPath) |
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| RcppExport SEXP | flowWorkspace_getPopCounts (SEXP gsPtrSEXP, SEXP sampleNamesSEXP, SEXP subpopulationSEXP, SEXP flowJoSEXP, SEXP isFullPathSEXP) |
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| Rcpp::List | getSplineCoefs (int channelRange, double maxValue, double pos, double neg, double widthBasis, bool inverse) |
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| RcppExport SEXP | flowWorkspace_getSplineCoefs (SEXP channelRangeSEXP, SEXP maxValueSEXP, SEXP posSEXP, SEXP negSEXP, SEXP widthBasisSEXP, SEXP inverseSEXP) |
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| void | addTrans (Rcpp::XPtr< GatingSet > gsPtr, Rcpp::S4 transformList) |
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| RcppExport SEXP | flowWorkspace_addTrans (SEXP gsPtrSEXP, SEXP transformListSEXP) |
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| void | updateChannels (Rcpp::S4 gs, Rcpp::DataFrame map) |
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| RcppExport SEXP | flowWorkspace_updateChannels (SEXP gsSEXP, SEXP mapSEXP) |
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| void | plotGh (XPtr< GatingSet > gs, string sampleName, string output) |
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| RcppExport SEXP | flowWorkspace_plotGh (SEXP gsSEXP, SEXP sampleNameSEXP, SEXP outputSEXP) |
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| StringVec | getNodes (XPtr< GatingSet > gs, string sampleName, unsigned short order, bool fullPath, bool showHidden) |
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| RcppExport SEXP | flowWorkspace_getNodes (SEXP gsSEXP, SEXP sampleNameSEXP, SEXP orderSEXP, SEXP fullPathSEXP, SEXP showHiddenSEXP) |
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| NODEID | getNodeID (XPtr< GatingSet > gs, string sampleName, string gatePath) |
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| RcppExport SEXP | flowWorkspace_getNodeID (SEXP gsSEXP, SEXP sampleNameSEXP, SEXP gatePathSEXP) |
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| NODEID | getParent (XPtr< GatingSet > gs, string sampleName, string gatePath) |
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| RcppExport SEXP | flowWorkspace_getParent (SEXP gsSEXP, SEXP sampleNameSEXP, SEXP gatePathSEXP) |
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| vector< NODEID > | getChildren (XPtr< GatingSet > gs, string sampleName, string gatePath, bool showHidden) |
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| RcppExport SEXP | flowWorkspace_getChildren (SEXP gsSEXP, SEXP sampleNameSEXP, SEXP gatePathSEXP, SEXP showHiddenSEXP) |
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| List | getPopStats (XPtr< GatingSet > gs, string sampleName, string gatePath) |
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| RcppExport SEXP | flowWorkspace_getPopStats (SEXP gsSEXP, SEXP sampleNameSEXP, SEXP gatePathSEXP) |
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| List | getCompensation (XPtr< GatingSet > gs, string sampleName) |
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| RcppExport SEXP | flowWorkspace_getCompensation (SEXP gsSEXP, SEXP sampleNameSEXP) |
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| List | getTransformations (XPtr< GatingSet > gs, string sampleName, bool inverse) |
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| RcppExport SEXP | flowWorkspace_getTransformations (SEXP gsSEXP, SEXP sampleNameSEXP, SEXP inverseSEXP) |
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| void | computeGates (XPtr< GatingSet > gs, string sampleName, NumericVector gainsVec, float extend_val, float extend_to) |
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| RcppExport SEXP | flowWorkspace_computeGates (SEXP gsSEXP, SEXP sampleNameSEXP, SEXP gainsVecSEXP, SEXP extend_valSEXP, SEXP extend_toSEXP) |
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| void | gating (XPtr< GatingSet > gs, NumericMatrix orig, string sampleName, NumericVector gainsVec, unsigned short nodeInd, bool recompute, float extend_val, bool ignore_case, bool computeTerminalBool, float timestep) |
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| RcppExport SEXP | flowWorkspace_gating (SEXP gsSEXP, SEXP origSEXP, SEXP sampleNameSEXP, SEXP gainsVecSEXP, SEXP nodeIndSEXP, SEXP recomputeSEXP, SEXP extend_valSEXP, SEXP ignore_caseSEXP, SEXP computeTerminalBoolSEXP, SEXP timestepSEXP) |
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| List | getGate (XPtr< GatingSet > gs, string sampleName, string gatePath) |
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| RcppExport SEXP | flowWorkspace_getGate (SEXP gsSEXP, SEXP sampleNameSEXP, SEXP gatePathSEXP) |
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| vector< bool > | getIndices (XPtr< GatingSet > gs, string sampleName, string gatePath) |
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| RcppExport SEXP | flowWorkspace_getIndices (SEXP gsSEXP, SEXP sampleNameSEXP, SEXP gatePathSEXP) |
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| void | setIndices (XPtr< GatingSet > gs, string sampleName, int u, BoolVec ind) |
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| RcppExport SEXP | flowWorkspace_setIndices (SEXP gsSEXP, SEXP sampleNameSEXP, SEXP uSEXP, SEXP indSEXP) |
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| bool | getGateFlag (XPtr< GatingSet > gs, string sampleName, string gatePath) |
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| RcppExport SEXP | flowWorkspace_getGateFlag (SEXP gsSEXP, SEXP sampleNameSEXP, SEXP gatePathSEXP) |
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| bool | getNegateFlag (XPtr< GatingSet > gs, string sampleName, string gatePath) |
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| RcppExport SEXP | flowWorkspace_getNegateFlag (SEXP gsSEXP, SEXP sampleNameSEXP, SEXP gatePathSEXP) |
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| bool | getHiddenFlag (XPtr< GatingSet > gs, string sampleName, string gatePath) |
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| RcppExport SEXP | flowWorkspace_getHiddenFlag (SEXP gsSEXP, SEXP sampleNameSEXP, SEXP gatePathSEXP) |
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| NODEID | addGate (XPtr< GatingSet > gs, string sampleName, List filter, string gatePath, string popName) |
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| RcppExport SEXP | flowWorkspace_addGate (SEXP gsSEXP, SEXP sampleNameSEXP, SEXP filterSEXP, SEXP gatePathSEXP, SEXP popNameSEXP) |
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| void | boolGating (XPtr< GatingSet > gs, string sampleName, List filter, unsigned nodeID) |
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| RcppExport SEXP | flowWorkspace_boolGating (SEXP gsSEXP, SEXP sampleNameSEXP, SEXP filterSEXP, SEXP nodeIDSEXP) |
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| void | setGate (XPtr< GatingSet > gs, string sampleName, string gatePath, List filter) |
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| RcppExport SEXP | flowWorkspace_setGate (SEXP gsSEXP, SEXP sampleNameSEXP, SEXP gatePathSEXP, SEXP filterSEXP) |
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| void | removeNode (XPtr< GatingSet > gs, string sampleName, string gatePath) |
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| RcppExport SEXP | flowWorkspace_removeNode (SEXP gsSEXP, SEXP sampleNameSEXP, SEXP gatePathSEXP) |
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| void | setNodeName (XPtr< GatingSet > gs, string sampleName, string gatePath, string newNodeName) |
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| RcppExport SEXP | flowWorkspace_setNodeName (SEXP gsSEXP, SEXP sampleNameSEXP, SEXP gatePathSEXP, SEXP newNodeNameSEXP) |
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| void | setNodeFlag (XPtr< GatingSet > gs, string sampleName, string gatePath, bool hidden) |
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| RcppExport SEXP | flowWorkspace_setNodeFlag (SEXP gsSEXP, SEXP sampleNameSEXP, SEXP gatePathSEXP, SEXP hiddenSEXP) |
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| XPtr< GatingSet > | parseWorkspace (string fileName, StringVec sampleIDs, StringVec sampleNames, bool isParseGate, unsigned short sampNloc, int xmlParserOption, unsigned short wsType) |
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| RcppExport SEXP | flowWorkspace_parseWorkspace (SEXP fileNameSEXP, SEXP sampleIDsSEXP, SEXP sampleNamesSEXP, SEXP isParseGateSEXP, SEXP sampNlocSEXP, SEXP xmlParserOptionSEXP, SEXP wsTypeSEXP) |
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| StringVec | getSamples (XPtr< GatingSet > gsPtr) |
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| RcppExport SEXP | flowWorkspace_getSamples (SEXP gsPtrSEXP) |
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| XPtr< GatingSet > | NewGatingSet (XPtr< GatingSet > gsPtr, string sampleName, StringVec newSampleNames) |
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| RcppExport SEXP | flowWorkspace_NewGatingSet (SEXP gsPtrSEXP, SEXP sampleNameSEXP, SEXP newSampleNamesSEXP) |
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| XPtr< GatingSet > | NewGatingSet_rootOnly (StringVec sampleNames) |
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| RcppExport SEXP | flowWorkspace_NewGatingSet_rootOnly (SEXP sampleNamesSEXP) |
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| void | saveGatingSet (XPtr< GatingSet > gs, string fileName) |
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| RcppExport SEXP | flowWorkspace_saveGatingSet (SEXP gsSEXP, SEXP fileNameSEXP) |
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| XPtr< GatingSet > | loadGatingSet (string fileName) |
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| RcppExport SEXP | flowWorkspace_loadGatingSet (SEXP fileNameSEXP) |
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| XPtr< GatingSet > | CloneGatingSet (XPtr< GatingSet > gs, StringVec samples) |
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| RcppExport SEXP | flowWorkspace_CloneGatingSet (SEXP gsSEXP, SEXP samplesSEXP) |
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| XPtr< GatingSet > | combineGatingSet (Rcpp::List gsList, Rcpp::List sampleList) |
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| RcppExport SEXP | flowWorkspace_combineGatingSet (SEXP gsListSEXP, SEXP sampleListSEXP) |
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| void | setSample (XPtr< GatingSet > gs, string oldName, string newName) |
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| RcppExport SEXP | flowWorkspace_setSample (SEXP gsSEXP, SEXP oldNameSEXP, SEXP newNameSEXP) |
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| unsigned short | getLogLevel () |
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| RcppExport SEXP | flowWorkspace_getLogLevel () |
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| void | setLogLevel (unsigned short loglevel) |
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| RcppExport SEXP | flowWorkspace_setLogLevel (SEXP loglevelSEXP) |
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| void | toggleErrorFlag () |
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| RcppExport SEXP | flowWorkspace_toggleErrorFlag () |
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1.8.6