# S4 Class for Spatially Resolved Transcriptomics Data

## Documentation for package ‘SpatialExperiment’ version 1.8.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

$-method | Methods for spatial attributes
addImg | Methods for handling image-related data
addImg-method | Methods for handling image-related data
cbind-method | Combining SpatialExperiment objects
coerce, | SpatialExperiment coercion methods
coerce-method | The 'SpatialImage' class
colData | SpatialExperiment colData
colData<- | SpatialExperiment colData
colData<--method | SpatialExperiment colData
dim-method | The 'SpatialImage' class
getImg | Methods for handling image-related data
getImg-method | Methods for handling image-related data
imgData | Methods for spatial attributes
imgData-method | Methods for spatial attributes
imgData-methods | Methods for handling image-related data
imgData<- | Methods for spatial attributes
imgData<--method | Methods for spatial attributes
imgRaster | The 'SpatialImage' class
imgRaster-method | The 'SpatialImage' class
imgRaster-method | Methods for handling image-related data
imgRaster<- | The 'SpatialImage' class
imgRaster<--method | The 'SpatialImage' class
imgSource | The 'SpatialImage' class
imgSource-method | The 'SpatialImage' class
imgSource-method | Methods for handling image-related data
imgSource<- | The 'SpatialImage' class
imgSource<--method | The 'SpatialImage' class
LoadedSpatialImage-class | The 'SpatialImage' class
mirrorImg | The 'SpatialImage' class
mirrorImg-method | The 'SpatialImage' class
mirrorImg-method | Methods for handling image-related data
molecules | Methods for named assays
molecules-method | Methods for named assays
molecules<- | Methods for named assays
molecules<--method | Methods for named assays
read10xVisium | Load data from a 10x Genomics Visium experiment
readImgData | Read images & scale factors for 10x Genomics Visium
RemoteSpatialImage-class | The 'SpatialImage' class
rmvImg | Methods for handling image-related data
rmvImg-method | Methods for handling image-related data
rotateImg | The 'SpatialImage' class
rotateImg-method | The 'SpatialImage' class
rotateImg-method | Methods for handling image-related data
scaleFactors | Methods for spatial attributes
scaleFactors-method | Methods for spatial attributes
show-method | Miscellaneous SpatialExperiment methods
show-method | Miscellaneous 'SpatialImage' methods
SingleCellExperiment, | SpatialExperiment coercion methods
spatialCoords | Methods for spatial attributes
spatialCoords-method | Methods for spatial attributes
spatialCoords<- | Methods for spatial attributes
spatialCoords<--method | Methods for spatial attributes
spatialCoordsNames | Methods for spatial attributes
spatialCoordsNames-method | Methods for spatial attributes
spatialCoordsNames<- | Methods for spatial attributes
spatialCoordsNames<--method | Methods for spatial attributes
spatialData | Methods for spatial attributes
spatialData-method | Methods for spatial attributes
spatialData<- | Methods for spatial attributes
spatialData<--method | Methods for spatial attributes
spatialDataNames | Methods for spatial attributes
spatialDataNames-method | Methods for spatial attributes
spatialDataNames<- | Methods for spatial attributes
spatialDataNames<--method | Methods for spatial attributes
SpatialExperiment | The SpatialExperiment class
SpatialExperiment-assays | Methods for named assays
SpatialExperiment-class | The SpatialExperiment class
SpatialExperiment-coercion | SpatialExperiment coercion methods
SpatialExperiment-colData | SpatialExperiment colData
SpatialExperiment-combine | Combining SpatialExperiment objects
SpatialExperiment-method | SpatialExperiment coercion methods
SpatialExperiment-methods | Methods for spatial attributes
SpatialExperiment-misc | Miscellaneous SpatialExperiment methods
SpatialExperiment-subset | Subsetting SpatialExperiment objects
SpatialImage | The 'SpatialImage' class
SpatialImage-class | The 'SpatialImage' class
SpatialImage-misc | Miscellaneous 'SpatialImage' methods
StoredSpatialImage-class | The 'SpatialImage' class
toSpatialExperiment | SpatialExperiment coercion methods
VirtualSpatialImage-class | The 'SpatialImage' class
[-method | Subsetting SpatialExperiment objects