Spatially-aware quality control for spatial transcriptomics
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Documentation for package ‘SpotSweeper’ version 1.9.2
Help Pages
| biased_spots | Biased Spots Data |
| DLPFC_artifact | human DLPFC dataset with a technical artifact (hangnail). |
| findArtifacts | Identify and annotate artifacts in spatial transcriptomics data |
| flagVisiumOutliers | Flag systematic Visium outlier positions |
| getMetadata | Get column metadata from a spatial object |
| getSpatialCoords | Get spatial coordinates from a spatial object |
| localOutliers | Detect local outliers in spatial transcriptomics data |
| localVariance | localVariance Function |
| plotQCmetrics | Plot QC metrics for a Single Sample in a SpatialExperiment object |
| plotQCpdf | Plot Outlier Metrics to PDF |
| setMetadata | Replace column metadata in a spatial object |
| subsetSpatialObject | Subset a spatial object by spots |
| validateMetadataColumns | Validate columns in spatial-object metadata |