SpaceTrooper performs Quality Control analysis of Image-Based spatial


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Documentation for package ‘SpaceTrooper’ version 0.99.3

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.getActiveGeometryName .getActiveGeometryName
.renameGeometry .renameGeometry
.setActiveGeometry .setActiveGeometry
addPolygonsToSPE addPolygonsToSPE
computeAreaFromPolygons computeAreaFromPolygons
computeAspectRatioFromPolygons computeAspectRatioFromPolygons
computeCenterFromPolygons computeCenterFromPolygons
computeLambda computeLambda
computeMissingMetricsMerfish computeMissingMetricsMerfish
computeMissingMetricsXenium computeMissingMetricsXenium
computeQScore computeQScore
computeQScoreFlags computeQScoreFlags
computeSpatialOutlier computeSpatialOutlier
computeThresholdFlags computeThresholdFlags
computeTrainDF computeTrainDF
getFencesOutlier getFencesOutlier
getModelFormula getModelFormula
plotCellsFovs plotCellsFovs
plotCentroids plotCentroids
plotMetricHist plotMetricHist
plotPolygons plotPolygons
plotQScoreTerms plotQScoreTerms
plotZoomFovsMap plotZoomFovsMap
qcFlagPlots qcFlagPlots
readAndAddPolygonsToSPE readAndAddPolygonsToSPE
readCosmxProteinSPE readCosmxSPE
readCosmxSPE readCosmxSPE
readMerfishSPE readMerfishSPE
readPolygons readPolygons
readPolygonsCosmx readPolygonsCosmx
readPolygonsMerfish readPolygonsMerfish
readPolygonsXenium readPolygonsXenium
readXeniumSPE Load data from a 10x Genomics Xenium experiment
spatialPerCellQC spatialPerCellQC
trainModel trainModel