Tools for ordering single-cell sequencing

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Documentation for package ‘slingshot’ version 1.0.0

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cl Bifurcating lineages data
clusterLabels-method Class 'SlingshotDataSet'
getCurves Construct Smooth Lineage Curves
getCurves-method Construct Smooth Lineage Curves
getLineages Infer Lineage Structure from Clustered Samples
getLineages-method Infer Lineage Structure from Clustered Samples
lines-method Plot Slingshot output
newSlingshotDataSet Initialize an object of class 'SlingshotDataSet'
newSlingshotDataSet-method Initialize an object of class 'SlingshotDataSet'
pairs-SlingshotDataSet Pairs plot of Slingshot output
pairs.SlingshotDataSet Pairs plot of Slingshot output
params Parameters for simulating a single lineage
plot-method Plot Slingshot output
plot-SlingshotDataSet Plot Slingshot output
plot3d-SlingshotDataSet Plot Slingshot output in 3D
plot3d.SlingshotDataSet Plot Slingshot output in 3D
plotGenePseudotime Plot Gene Expression by Pseudotime
plotGenePseudotime-method Plot Gene Expression by Pseudotime
predict-method Predict from a Slingshot model
rd Bifurcating lineages data
reducedDim-method Class 'SlingshotDataSet'
reducedDims-method Class 'SlingshotDataSet'
show-method Class 'SlingshotDataSet'
slingAdjacency Extract Slingshot adjacency matrix
slingAdjacency-method Extract Slingshot adjacency matrix
slingCurves Extract simultaneous principal curves
slingCurves-method Extract simultaneous principal curves
slingCurveWeights Get Slingshot pseudotime values
slingCurveWeights-method Get Slingshot pseudotime values
slingLineages Extract the Slingshot lineages
slingLineages-method Extract the Slingshot lineages
slingParams Methods for parameters used by Slingshot
slingParams-method Methods for parameters used by Slingshot
slingPseudotime Get Slingshot pseudotime values
slingPseudotime-method Get Slingshot pseudotime values
slingshot Perform lineage inference with Slingshot
slingshot-method Perform lineage inference with Slingshot
SlingshotDataSet Extract Slingshot output
SlingshotDataSet-class Class 'SlingshotDataSet'
SlingshotDataSet-method Extract Slingshot output
slingshotExample Bifurcating lineages data
splatterParameters Parameters for simulating a single lineage
[-method Class 'SlingshotDataSet'