FCS Format
To facilitate the use of outside analysis tools, processor outputs FCS files that Multiplex Analysis Viewer requires. Equivalent CSV files are written out in the same folder.
Header | Description |
cell_id:cell_id | Cell ID unique to experiment |
region:region | Region 1-index within the experiment |
tile_num:tile_num | Tile 1-index within the corresponding region |
x:x | Location of cell center, 0 to tileWidth * regionWidth |
y:y | Location of cell center, 0 to tileHeight * regionHeight |
z:z | Location of cell center, 0 to numZSlices |
x_tile:x_tile | Location of cell center within the corresponding tile, 0 to tileWidth |
y_tile:y_tile | Location of cell center within the corresponding tile, 0 to tileHeight |
size:size | Number of voxels within the segmented cell |
cyc001_ch001:<marker_name> | Integrated pixel intensity of all voxels within the segmented cell, can be compensated or uncompensated |
... | ... |
tsne_x:tsne_x | t-SNE x coordinate unique to region |
tsne_y:tsne_y | t-SNE y coordinate unique to region |
homogeneity:homogeneity | A measure of expression homogeneity.
sum(expression) / sqrt(sum(expression^2)) |
Last modified 3yr ago