Index

_

__init__() (ExpressionMatrix2.CellGraphVertexInfo method) (ExpressionMatrix2.ExpressionMatrix method)

A

addCell() (ExpressionMatrix2.ExpressionMatrix method) addCellFromJson() (ExpressionMatrix2.ExpressionMatrix method) addCellMetaData() (ExpressionMatrix2.ExpressionMatrix method) addCells() (ExpressionMatrix2.ExpressionMatrix method) addCellsFromBioHub1() (ExpressionMatrix2.ExpressionMatrix method) addCellsFromBioHub2() (ExpressionMatrix2.ExpressionMatrix method)

addCellsFromBioHub3() (ExpressionMatrix2.ExpressionMatrix method) addCellsFromHdf5() (ExpressionMatrix2.ExpressionMatrix method) addGene() (ExpressionMatrix2.ExpressionMatrix method) analyzeLsh() (ExpressionMatrix2.ExpressionMatrix method) analyzeLshSignatures() (ExpressionMatrix2.ExpressionMatrix method) analyzeSimilarPairs() (ExpressionMatrix2.ExpressionMatrix method)

C

cellCount() (ExpressionMatrix2.ExpressionMatrix method) CellGraphVertexInfo (class in ExpressionMatrix2) cellId (ExpressionMatrix2.CellGraphVertexInfo attribute) cellIdFromString() (ExpressionMatrix2.ExpressionMatrix method) compareSimilarPairs() (ExpressionMatrix2.ExpressionMatrix method) computeCellGraphLayout() (ExpressionMatrix2.ExpressionMatrix method) computeCellSimilarity() (ExpressionMatrix2.ExpressionMatrix method) computeLshSignatures() (ExpressionMatrix2.ExpressionMatrix method) computeMetaDataRandIndex() (ExpressionMatrix2.ExpressionMatrix method) createCellGraph() (ExpressionMatrix2.ExpressionMatrix method) createCellSet() (ExpressionMatrix2.ExpressionMatrix method) createCellSetDifference() (ExpressionMatrix2.ExpressionMatrix method) createCellSetIntersection() (ExpressionMatrix2.ExpressionMatrix method) createCellSetUnion() (ExpressionMatrix2.ExpressionMatrix method)

createCellSetUsingMetaData() (ExpressionMatrix2.ExpressionMatrix method) createCellSetUsingNumericMetaDataBetween() (ExpressionMatrix2.ExpressionMatrix method) createCellSetUsingNumericMetaDataGreaterThan() (ExpressionMatrix2.ExpressionMatrix method) createCellSetUsingNumericMetaDataLessThan() (ExpressionMatrix2.ExpressionMatrix method) createClusterGraph() (ExpressionMatrix2.ExpressionMatrix method) createGeneGraph() (ExpressionMatrix2.ExpressionMatrix method) createGeneSetDifference() (ExpressionMatrix2.ExpressionMatrix method) createGeneSetFromGeneNames() (ExpressionMatrix2.ExpressionMatrix method) createGeneSetIntersection() (ExpressionMatrix2.ExpressionMatrix method) createGeneSetUnion() (ExpressionMatrix2.ExpressionMatrix method) createGeneSetUsingInformationContent() (ExpressionMatrix2.ExpressionMatrix method) createMetaDataFromClusterGraph() (ExpressionMatrix2.ExpressionMatrix method) createSignatureGraph() (ExpressionMatrix2.ExpressionMatrix method) createWellExpressedGeneSet() (ExpressionMatrix2.ExpressionMatrix method)

D

downsampleCellSet() (ExpressionMatrix2.ExpressionMatrix method)

E

explore() (ExpressionMatrix2.ExpressionMatrix method) ExpressionMatrix (class in ExpressionMatrix2)

ExpressionMatrix2 (module)

F

findSimilarGenePairs0() (ExpressionMatrix2.ExpressionMatrix method) findSimilarPairs0() (ExpressionMatrix2.ExpressionMatrix method) findSimilarPairs4() (ExpressionMatrix2.ExpressionMatrix method) findSimilarPairs4Gpu() (ExpressionMatrix2.ExpressionMatrix method)

findSimilarPairs5() (ExpressionMatrix2.ExpressionMatrix method) findSimilarPairs6() (ExpressionMatrix2.ExpressionMatrix method) findSimilarPairs7() (ExpressionMatrix2.ExpressionMatrix method) findSimilarPairs7Gpu() (ExpressionMatrix2.ExpressionMatrix method)

G

geneCount() (ExpressionMatrix2.ExpressionMatrix method) geneIdFromName() (ExpressionMatrix2.ExpressionMatrix method) geneName() (ExpressionMatrix2.ExpressionMatrix method) getCellExpressionCount() (ExpressionMatrix2.ExpressionMatrix method) getCellExpressionCountFromGeneName() (ExpressionMatrix2.ExpressionMatrix method) getCellExpressionCounts() (ExpressionMatrix2.ExpressionMatrix method) getCellGraphEdges() (ExpressionMatrix2.ExpressionMatrix method) getCellGraphNames() (ExpressionMatrix2.ExpressionMatrix method) getCellGraphVertices() (ExpressionMatrix2.ExpressionMatrix method) getCellMetaData() (ExpressionMatrix2.ExpressionMatrix method) getCellMetaDataValue() (ExpressionMatrix2.ExpressionMatrix method) getCellSet() (ExpressionMatrix2.ExpressionMatrix method) getCellSetNames() (ExpressionMatrix2.ExpressionMatrix method)

getCellsExpressionCount() (ExpressionMatrix2.ExpressionMatrix method) getCellsExpressionCountFromGeneName() (ExpressionMatrix2.ExpressionMatrix method) getCellsExpressionCounts() (ExpressionMatrix2.ExpressionMatrix method) getCellsExpressionCountsForGenes() (ExpressionMatrix2.ExpressionMatrix method) getCellsMetaData() (ExpressionMatrix2.ExpressionMatrix method) getClusterAverageExpression() (ExpressionMatrix2.ExpressionMatrix method) getClusterCells() (ExpressionMatrix2.ExpressionMatrix method) getClusterGraphGenes() (ExpressionMatrix2.ExpressionMatrix method) getClusterGraphVertices() (ExpressionMatrix2.ExpressionMatrix method) getDenseExpressionMatrix() (ExpressionMatrix2.ExpressionMatrix method) getGeneGraphConnectivity() (ExpressionMatrix2.ExpressionMatrix method) getGeneSetGenes() (ExpressionMatrix2.ExpressionMatrix method)

N

NormalizationMethod (class in ExpressionMatrix2)

R

removeCellMetaData() (ExpressionMatrix2.ExpressionMatrix method) removeCellSet() (ExpressionMatrix2.ExpressionMatrix method) removeGeneSet() (ExpressionMatrix2.ExpressionMatrix method)

removeSignatureGraph() (ExpressionMatrix2.ExpressionMatrix method) removeSimilarPairs() (ExpressionMatrix2.ExpressionMatrix method)

S

setGeneMetaData() (ExpressionMatrix2.ExpressionMatrix method)

T

testExpressionMatrixSubset() (ExpressionMatrix2.ExpressionMatrix method)

W

writeSimilarPairs() (ExpressionMatrix2.ExpressionMatrix method)

X

x() (ExpressionMatrix2.CellGraphVertexInfo method)

Y

y() (ExpressionMatrix2.CellGraphVertexInfo method)