Preprocessing Steps and Available Function Candidates

This page lists the preprocessing functions included in each step.

Preprocessing Step: filter.gene

• dance.transforms.FilterGenesPercentile

• dance.transforms.FilterGenesScanpyOrder

• dance.transforms.FilterGenesPlaceHolder

Preprocessing Step: filter.cell

• dance.transforms.FilterCellsScanpyOrder

• dance.transforms.FilterCellsPlaceHolder

• dance.transforms.FilterCellsCommonMod

Preprocessing Step: normalize

• dance.transforms.ColumnSumNormalize

• dance.transforms.ScTransform

• dance.transforms.Log1P

• dance.transforms.NormalizeTotal

• dance.transforms.NormalizeTotalLog1P

• dance.transforms.tfidfTransform

• dance.transforms.NormalizePlaceHolder

Preprocessing Step: filter.gene(highly_variable)

• dance.transforms.FilterGenesTopK

• dance.transforms.FilterGenesRegression

• dance.transforms.FilterGenesMatch

• dance.transforms.HighlyVariableGenesRawCount

• dance.transforms.HighlyVariableGenesLogarithmizedByTopGenes

• dance.transforms.HighlyVariableGenesLogarithmizedByMeanAndDisp

• dance.transforms.FilterGenesNumberPlaceHolder

Preprocessing Step: feature.cell

• dance.transforms.CellPCA

• dance.transforms.CellSVD

• dance.transforms.CellSparsePCA

• dance.transforms.WeightedFeaturePCA

• dance.transforms.WeightedFeatureSVD

• dance.transforms.GaussRandProjFeature

• dance.transforms.FeatureCellPlaceHolder