The biased_spots dataset is a data.frame containing information about specific
spatial spots identified as technical outliers in spatial transcriptomics experiments.
Each entry represents a biased spot characterized by its spatial coordinates
(row and column) and a unique barcode. This dataset is utilized by the
flagVisiumOutliers function to flag and exclude these outlier spots from
downstream analyses, thereby enhancing data quality and reliability.
Usage
data(biased_spots)Format
A data.frame with the following columns:
- row
Integer. The row position of a biased spot within the spatial grid.
- col
Integer. The column position of a biased spot within the spatial grid.
- barcode
Character. A unique identifier corresponding to the spatial transcriptomics barcode of the biased spot.
Source
The biased_spots.rds file was generated in the analysis of local outliers.
See https://github.com/boyiguo1/Manuscript-SpotSweeper/blob/main/code/03_Visium/figure_3.R for more details.
Examples
data(biased_spots)