test-data/cellfinder/bright_brain/info.txt

# Test data info (for internal use)

All this data was generated using the main brach (commit 352aa404a3a488c672465d2e20e489ac71ffad71) before the pytorch detection PR.

The signal images originate from the CPL Lab at Cornell.

The peak_enhanced and 2d_filter images in this folder were derived from the images in the signal directory. They were generated by passing them
through the 2d filters (median, gaussian, laplacian) using values of
`soma_diameter=30, log_sigma_size=0.2, n_sds_above_mean_thresh=10`. For peak_enhanced, the input data type was uint32 and filtering data type float64.
For 2d_filter it was uint16 and float32, respectively.

The tiles directory contains the output from `TileProcessor.get_tile_mask`, indicating
for each tile whether the tile is in the brain or not.

3d_filter is the output generated by the volume filter after 2d/3d filtering. Using
`voxel_sizes=(5.06, 4.5, 4.5), soma_diameter=30, max_cluster_size=100000, ball_xy_size=6,
ball_z_size=15, ball_overlap_fraction=0.6, soma_spread_factor=1.4, log_sigma_size=0.2,
n_sds_above_mean_thresh=10`.

detected_cells.xml is the cells that were detected by running through the whole process.