SeuratObject-package	SeuratObject-package
$.JackStrawData	JackStrawData-methods
$.Seurat	Seurat-methods
$.SeuratCommand	SeuratCommand-methods
$<-.Seurat	Seurat-methods
%iff%	set-if-null
%||%	set-if-null
.DollarNames.JackStrawData	JackStrawData-methods
.DollarNames.Seurat	Seurat-methods
.DollarNames.SeuratCommand	SeuratCommand-methods
AddMetaData	AddMetaData
AddMetaData.Assay	AddMetaData
AddMetaData.Seurat	AddMetaData
AddSamples	Seurat-methods
as.Graph	as.Graph
as.Graph.Matrix	as.Graph
as.Graph.matrix	as.Graph
as.Graph.Neighbor	as.Graph
as.list.SeuratCommand	SeuratCommand-methods
as.logical.JackStrawData	JackStrawData-methods
as.Neighbor	as.Neighbor
as.Neighbor.Graph	as.Neighbor
as.Seurat	as.Seurat
as.sparse	as.sparse
as.sparse.data.frame	as.sparse
as.sparse.Matrix	as.sparse
as.sparse.matrix	as.sparse
Assay	Assay-class
Assay-class	Assay-class
Assay-methods	Assay-methods
AssayData	AssayData
Assays	ObjectAccess
Cells	Cells
Cells.default	Cells
Cells.DimReduc	Cells
Cells.Neighbor	Cells
Cells.SpatialImage	SpatialImage-methods
CellsByIdentities	CellsByIdentities
CellsByImage	CellsByImage
CheckGC	CheckGC
colMeans	reexports
colMeans,Assay-method	Assay-methods
colMeans,Seurat-method	Seurat-methods
colSums	reexports
colSums,Assay-method	Assay-methods
colSums,Seurat-method	Seurat-methods
Command	Command
Command.Seurat	Command
CreateAssayObject	CreateAssayObject
CreateDimReducObject	CreateDimReducObject
CreateSeuratObject	CreateSeuratObject
CreateSeuratObject.Assay	CreateSeuratObject
CreateSeuratObject.default	CreateSeuratObject
DefaultAssay	DefaultAssay
DefaultAssay.Assay	DefaultAssay
DefaultAssay.DimReduc	DefaultAssay
DefaultAssay.Graph	DefaultAssay
DefaultAssay.Seurat	DefaultAssay
DefaultAssay.SeuratCommand	DefaultAssay
DefaultAssay.SpatialImage	SpatialImage-methods
DefaultAssay<-	DefaultAssay
DefaultAssay<-.Assay	DefaultAssay
DefaultAssay<-.DimReduc	DefaultAssay
DefaultAssay<-.Graph	DefaultAssay
DefaultAssay<-.Seurat	DefaultAssay
DefaultAssay<-.SpatialImage	SpatialImage-methods
dim.Assay	Assay-methods
dim.DimReduc	DimReduc-methods
dim.Neighbor	Neighbor-methods
dim.Seurat	Seurat-methods
dim.SpatialImage	SpatialImage-methods
dimnames.Assay	Assay-methods
dimnames.DimReduc	DimReduc-methods
dimnames.Seurat	Seurat-methods
DimReduc	DimReduc-class
DimReduc-class	DimReduc-class
DimReduc-methods	DimReduc-methods
Distances	Distances
Distances.Neighbor	Distances
droplevels.Seurat	Idents
Embeddings	Embeddings
Embeddings.DimReduc	Embeddings
Embeddings.Seurat	Embeddings
FetchData	FetchData
GetAssayData	AssayData
GetAssayData.Assay	AssayData
GetAssayData.Seurat	AssayData
GetImage	GetImage
GetImage.Seurat	GetImage
GetImage.SpatialImage	SpatialImage-methods
GetTissueCoordinates	GetTissueCoordinates
GetTissueCoordinates.Seurat	GetTissueCoordinates
GetTissueCoordinates.SpatialImage	SpatialImage-methods
Graph	Graph-class
Graph-class	Graph-class
Graphs	ObjectAccess
HVFInfo	VariableFeatures
HVFInfo.Assay	VariableFeatures
HVFInfo.Seurat	VariableFeatures
Idents	Idents
Idents.Seurat	Idents
Idents<-	Idents
Idents<-.Seurat	Idents
Images	Images
Index	Index
Index.Neighbor	Index
Index<-	Index
Index<-.Neighbor	Index
Indices	Indices
Indices.Neighbor	Indices
IsGlobal	IsGlobal
IsGlobal.default	IsGlobal
IsGlobal.DimReduc	IsGlobal
IsGlobal.SpatialImage	SpatialImage-methods
IsS4List	s4list
JackStrawData	JackStrawData-class
JackStrawData-class	JackStrawData-class
JackStrawData-methods	JackStrawData-methods
JS	JS
JS.DimReduc	JS
JS.JackStrawData	JS
JS<-	JS
JS<-.DimReduc	JS
JS<-.JackStrawData	JS
Key	Key
Key.Assay	Key
Key.DimReduc	Key
Key.Seurat	Key
Key.SpatialImage	SpatialImage-methods
Key<-	Key
Key<-.Assay	Key
Key<-.DimReduc	Key
Key<-.SpatialImage	SpatialImage-methods
length.DimReduc	DimReduc-methods
levels.Seurat	Idents
levels<-.Seurat	Idents
ListToS4	s4list
Loadings	Loadings
Loadings.DimReduc	Loadings
Loadings.Seurat	Loadings
Loadings<-	Loadings
Loadings<-.DimReduc	Loadings
LogSeuratCommand	LogSeuratCommand
merge	Seurat-methods
merge.Assay	Assay-methods
merge.DimReduc	DimReduc-methods
merge.Seurat	Seurat-methods
MergeSeurat	Seurat-methods
Misc	Misc
Misc.Assay	Misc
Misc.DimReduc	Misc
Misc.Seurat	Misc
Misc<-	Misc
Misc<-.Assay	Misc
Misc<-.DimReduc	Misc
Misc<-.Seurat	Misc
names.DimReduc	DimReduc-methods
names.Seurat	Seurat-methods
Neighbor	Neighbor-class
Neighbor-class	Neighbor-class
Neighbor-methods	Neighbor-methods
Neighbors	ObjectAccess
pbmc_small	pbmc_small
print	DimReduc-methods
print.DimReduc	DimReduc-methods
Project	Project
Project.Seurat	Project
Project<-	Project
Project<-.Seurat	Project
Radius	Radius
Radius.SpatialImage	SpatialImage-methods
Reductions	ObjectAccess
reexports	reexports
RenameAssays	RenameAssays
RenameCells	RenameCells
RenameCells.Assay	RenameCells
RenameCells.DimReduc	RenameCells
RenameCells.Neighbor	RenameCells
RenameCells.Seurat	RenameCells
RenameCells.SpatialImage	SpatialImage-methods
RenameIdent	Idents
RenameIdents	Idents
RenameIdents.Seurat	Idents
ReorderIdent	Idents
ReorderIdent.Seurat	Idents
rowMeans	reexports
rowMeans,Assay-method	Assay-methods
rowMeans,Seurat-method	Seurat-methods
RowMergeSparseMatrices	RowMergeSparseMatrices
rowSums	reexports
rowSums,Assay-method	Assay-methods
rowSums,Seurat-method	Seurat-methods
s4list	s4list
S4ToList	s4list
S4ToList.default	s4list
S4ToList.list	s4list
set-if-null	set-if-null
SetAssayData	AssayData
SetAssayData.Assay	AssayData
SetAssayData.Seurat	AssayData
SetDimReduction	CreateDimReducObject
SetIdent	Idents
SetIdent.Seurat	Idents
Seurat	Seurat-class
seurat	oldseurat-class
Seurat-class	Seurat-class
seurat-class	oldseurat-class
Seurat-methods	Seurat-methods
SeuratAccess	AddMetaData
SeuratCommand	SeuratCommand-class
SeuratCommand-class	SeuratCommand-class
SeuratCommand-methods	SeuratCommand-methods
SeuratObject	SeuratObject-package
show,Assay-method	Assay-methods
show,DimReduc-method	DimReduc-methods
show,JackStrawData-method	JackStrawData-methods
show,Neighbor-method	Neighbor-methods
show,Seurat-method	Seurat-methods
show,seurat-method	oldseurat-class
show,SeuratCommand-method	SeuratCommand-methods
show,SpatialImage-method	SpatialImage-methods
SpatialImage	SpatialImage-class
SpatialImage-class	SpatialImage-class
SpatialImage-methods	SpatialImage-methods
SpatiallyVariableFeatures	VariableFeatures
SpatiallyVariableFeatures.Assay	VariableFeatures
SpatiallyVariableFeatures.Seurat	VariableFeatures
StashIdent	Idents
StashIdent.Seurat	Idents
Stdev	Stdev
Stdev.DimReduc	Stdev
Stdev.Seurat	Stdev
subset	Seurat-methods
subset.Assay	Assay-methods
subset.DimReduc	DimReduc-methods
subset.Seurat	Seurat-methods
subset.SpatialImage	SpatialImage-methods
SVFInfo	VariableFeatures
SVFInfo.Assay	VariableFeatures
SVFInfo.Seurat	VariableFeatures
Tool	Tool
Tool.Seurat	Tool
Tool<-	Tool
Tool<-.Seurat	Tool
Tools	Tool
UpdateSeuratObject	UpdateSeuratObject
VariableFeatures	VariableFeatures
VariableFeatures.Assay	VariableFeatures
VariableFeatures.Seurat	VariableFeatures
VariableFeatures<-	VariableFeatures
VariableFeatures<-.Assay	VariableFeatures
VariableFeatures<-.Seurat	VariableFeatures
WhichCells	WhichCells
WhichCells.Assay	WhichCells
WhichCells.Seurat	WhichCells
[.Assay	Assay-methods
[.DimReduc	DimReduc-methods
[.Seurat	Seurat-methods
[.SeuratCommand	SeuratCommand-methods
[.SpatialImage	SpatialImage-methods
[[.Assay	Assay-methods
[[.DimReduc	DimReduc-methods
[[.Seurat	Seurat-methods
[[<-,Assay-method	Assay-methods
[[<-,Seurat-method	Seurat-methods
