API for jasonserviss/CIMseq
CIMseq is a software suite for analysis of scRNAseq data that has been produced using the cellular interactions by multiplet sequencing method

Global functions
CIMseq Man page
CIMseq-package Man page
CIMseqMultiplets Man page
CIMseqMultiplets,matrix-method Man page
CIMseqMultiplets,missing-method Man page
CIMseqMultiplets-class Man page
CIMseqMultiplets_test Man page
CIMseqSinglets Man page
CIMseqSinglets,matrix-method Man page
CIMseqSinglets,missing-method Man page
CIMseqSinglets-class Man page
CIMseqSinglets_test Man page
CIMseqSwarm Man page
CIMseqSwarm,CIMseqSinglets,CIMseqMultiplets-method Man page
CIMseqSwarm-class Man page
CIMseqSwarm_test Man page
adjustAccordingToFractions Man page
adjustFractions Man page
appropriateSinglets Man page
c,CIMseqMultiplets-method Man page
c,CIMseqSinglets-method Man page
c,CIMseqSwarm-method Man page
calcResiduals Man page
calculateCost Man page
calculateCostDensity Man page
calculateCosts Man page
calculateCosts,CIMseqSinglets,CIMseqMultiplets,CIMseqSwarm-metho Man page
calculateEdgeStats Man page
calculateLogRowMeans Man page
cellNumberPerClass Man page
classify_louvain Man page
col40 Man page
coloursFromTargets Man page
constructGraph Man page
convertToERCC Man page
cost Man page
costCalc Man page
costNegSum Man page
countsPerClass Man page
divide_by Man page
draw_legend Man page
erccPerClass Man page
estimateCells Man page
estimateCells,CIMseqSinglets-method Man page
estimateTotalConnections Man page
expectedInteractionFreq Man page
filterSwarm Man page
filterSwarm,CIMseqSwarm-method Man page
fixNegInf Man page
g_legend Man page
getCellsForMultiplet Man page
getCellsForMultiplet,CIMseqSwarm-method Man page
getData Man page
getData,CIMseqMultiplets-method Man page
getData,CIMseqSinglets-method Man page
getData,CIMseqSwarm-method Man page
getData<- Man page
getData<-,CIMseqMultiplets-method Man page
getData<-,CIMseqSinglets-method Man page
getEdgesForMultiplet Man page
getEdgesForMultiplet,CIMseqSwarm-method Man page
getKNN Man page
getMultipletsForEdge Man page
getMultipletsForEdge,CIMseqSwarm-method Man page
gg Man page
gg-class Man page
initialize,CIMseqMultiplets-method Man page
initialize,CIMseqSinglets-method Man page
initialize,CIMseqSwarm-method Man page
jaccardSimilarity Man page
longFormConnections Man page
matrix_to_tibble Man page
means.dim.red Man page
multipletSums Man page
multiply_by Man page
namedListToTibble Man page
normalizeFractions Man page
normalizeVec Man page
pcByVarPercent Man page
pearsonsDist Man page
plotCountsData Man page
plotCountsData,CIMseqSinglets,CIMseqMultiplets-method Man page
plotCountsERCC Man page
plotCountsERCC,CIMseqSinglets,CIMseqMultiplets-method Man page
plotCountsMarkers Man page
plotCountsMarkers,CIMseqSinglets,CIMseqMultiplets-method Man page
plotData Man page
plotData,gg-method Man page
plotSwarmBarBase Man page
plotSwarmBarBase,CIMseqSwarm,CIMseqSinglets,CIMseqMultiplets-met Man page
plotSwarmCircos Man page
plotSwarmCircos,CIMseqSwarm-method Man page
plotSwarmEdgeBar Man page
plotSwarmEdgeBar,CIMseqSwarm,CIMseqSinglets,CIMseqMultiplets-met Man page
plotSwarmGenes Man page
plotSwarmGenes,CIMseqSwarm-method Man page
plotSwarmGraph Man page
plotSwarmGraph,CIMseqSwarm,CIMseqSinglets,CIMseqMultiplets-metho Man page
plotSwarmHeat Man page
plotSwarmHeat,CIMseqSwarm,CIMseqSinglets,CIMseqMultiplets-method Man page
plotSwarmPbar Man page
plotSwarmPbar,CIMseqSwarm,CIMseqSinglets,CIMseqMultiplets-method Man page
plotSwarmPosition Man page
plotSwarmPosition,CIMseqSwarm-method Man page
plotUnsupervisedClass Man page
plotUnsupervisedClass,CIMseqSinglets-method Man page
plotUnsupervisedMarkers Man page
plotUnsupervisedMarkers,CIMseqSinglets,CIMseqMultiplets-method Man page
processMarkers Man page
removeOutliers Man page
runPCA Man page
runTsne Man page
sampleSinglets Man page
selectTopMax Man page
selectTopVar Man page
show,CIMseqMultiplets-method Man page
show,CIMseqSinglets-method Man page
show,CIMseqSwarm-method Man page
subsetSinglets Man page
testCounts Man page
testMeta Man page
tidySinglets Man page
tidySwarm Man page
vecToMat Man page
jasonserviss/CIMseq documentation built on May 8, 2019, 9:55 p.m.