Cell level data frame from Example dataset for spatial transcriptional profiling of tissue
Source:R/data.R
ori_CellStatsDF.RdThe example dataset is based on one run of SMI RNA readout for FFPE melanoma tissue samples. It contains information for 1375 cells with 756783 transcripts within a cropped region of one single FOV of 1 tissue section.
Usage
data(ori_CellStatsDF)Format
An object of class "data.frame" with 1375 cells in row and 10 variables
- cell_ID
unique id for cell based on original cell segmentaion assignment
- slide
slide ID of given cell
- fov
fov ID of given cell
- CellId
the cell label assignment of given cell within given FOV based on original cell segmentation
- CenterX
spatial coordinate of the cell centroid in x-axis of the given FOV, unit in micron
- CenterY
spatial coordinate of the cell centroid in y-axis of the given FOV, unit in micron
- Width
the bounding box length of given cell segment along x-axis, unit in micron
- Height
the bounding box length of given cell segment along y-axis, unit in micron
- Area
the area of given cell segment, unit in square micron
- AspectRatio
the aspect ratio of boundingbox width over height for given cell segment
See also
mini_transcriptDF for corresponding transcript level dataset, ori_RawExprs for corresponding cell x gene expression matrix