|
AddModuleScoreScaled()
|
AddModuleScore from Seurat using scaled expression values |
|
CalcPCHeuristics()
|
Calculate heuristic metrics to determine optimal number of principal components for downstream analyses |
|
Clean()
|
Clean
gc but invisible |
|
Cluster()
|
Leiden graph-based clustering |
|
DefineMarkers()
|
Define markers with presto with additional metrics |
|
DetectAmbientRNA()
|
Fit models to cell groups |
|
Downsample()
|
Downsample cells evenly across groups |
|
FitAmbientModel()
|
Fit model |
|
Geosketch()
|
Geosketch Seurat object |
|
GetDate()
|
Timestamp
Get current timestamp |
|
LoessRegression()
|
Loess regression |
|
Log2RmInf()
|
Take log2 and remove infinite results |
|
NumCellsPerGroup()
|
Calculate number of cells to downsample per group |
|
OutlinedDotPlot()
|
Modified version of Seurat::Dotplot with outlined points |
|
PlotAmbientRNA()
|
Plot Ambient RNA model fits |
|
PrepareGraph()
|
Create igraph-compatible graph and save in Seurat object |
|
ReduceDims()
|
Process Seurat seurat.object through PCA |
|
RemoveAxes()
|
RemoveAxes |
|
Resample()
|
Sample if length(x) != 1 |
|
SelectPoints()
|
Select points |
|
StartFutureLapply()
|
Set Future plan to multisession |
|
StopFutureLapply()
|
Set Future plan to sequential |
|
Timestamp()
|
Timestamp
Get current timestamp |
|
VarToString()
|
Convert variable to string |
|
`%iff%`
|
Set a default value if an object is NOT null |
|
`%||%`
|
Set a default value if an object is null |