Name		Name	Last commit message	Last commit date
3CT_data		3CT_data
3CT_processing.ipynb		3CT_processing.ipynb
3CT_processing_horizontal.ipynb		3CT_processing_horizontal.ipynb
3CT_processing_vertical.ipynb		3CT_processing_vertical.ipynb
3CT_processing_vertical_full_file_name.ipynb		3CT_processing_vertical_full_file_name.ipynb
ADX_inputs_generator.ipynb		ADX_inputs_generator.ipynb
ALLEN_cc_v_vit_d.ipynb		ALLEN_cc_v_vit_d.ipynb
ALLEN_cell_counts_and_region_volumes_090821.ipynb		ALLEN_cell_counts_and_region_volumes_090821.ipynb
ALLEN_cell_counts_and_region_volumes_generic_092021.ipynb		ALLEN_cell_counts_and_region_volumes_generic_092021.ipynb
GUBRA_allcolumns.ipynb		GUBRA_allcolumns.ipynb
GUBRA_cc_v_vit_d.ipynb		GUBRA_cc_v_vit_d.ipynb
GUBRA_cc_v_vit_d_flex.ipynb		GUBRA_cc_v_vit_d_flex.ipynb
GUBRA_cell_counts_and_region_volumes_090821.ipynb		GUBRA_cell_counts_and_region_volumes_090821.ipynb
GUBRA_cell_counts_and_region_volumes_generic_092021.ipynb		GUBRA_cell_counts_and_region_volumes_generic_092021.ipynb
GUBRA_cell_vols_dens_pixels.ipynb		GUBRA_cell_vols_dens_pixels.ipynb
GUBRA_cell_volumes_density_pixel.ipynb		GUBRA_cell_volumes_density_pixel.ipynb
GUBRA_cell_volumes_density_pixel_MASTER.ipynb		GUBRA_cell_volumes_density_pixel_MASTER.ipynb
GUBRA_cluster_analysis.ipynb		GUBRA_cluster_analysis.ipynb
GUBRA_output_all_columns.ipynb		GUBRA_output_all_columns.ipynb
GUBRA_output_cc_Dan_Excel.ipynb		GUBRA_output_cc_Dan_Excel.ipynb
GUBRA_output_dens_Dan_Excel.ipynb		GUBRA_output_dens_Dan_Excel.ipynb
GUBRA_output_for_ADX.ipynb		GUBRA_output_for_ADX.ipynb
GUBRA_output_vit_Dan_Excel.ipynb		GUBRA_output_vit_Dan_Excel.ipynb
GUBRA_output_vol_Dan_Excel.ipynb		GUBRA_output_vol_Dan_Excel.ipynb
README.md		README.md
cell_count.ipynb		cell_count.ipynb
cell_count_consensus.ipynb		cell_count_consensus.ipynb
cell_count_no_nicknames.ipynb		cell_count_no_nicknames.ipynb
cell_count_no_nicknames_no filtering.ipynb		cell_count_no_nicknames_no filtering.ipynb
cell_count_output.csv		cell_count_output.csv
cell_counts_and_region_volumes_090821.ipynb		cell_counts_and_region_volumes_090821.ipynb
cell_counts_and_region_volumes_generic_092021.ipynb		cell_counts_and_region_volumes_generic_092021.ipynb
count_volumes&activity.ipynb		count_volumes&activity.ipynb
count_volumes&activity.py		count_volumes&activity.py
count_volumes&activity_all_files.ipynb		count_volumes&activity_all_files.ipynb
counting.ipynb		counting.ipynb
days_from_frist_and_last.ipynb		days_from_frist_and_last.ipynb
fixing_brain_gubra_map.ipynb		fixing_brain_gubra_map.ipynb
handling_data_types.ipynb		handling_data_types.ipynb
intensitites_template_generation.ipynb		intensitites_template_generation.ipynb
merging_data_frames.ipynb		merging_data_frames.ipynb
plotting_pixel_count.ipynb		plotting_pixel_count.ipynb
reading_data_frame.ipynb		reading_data_frame.ipynb
region-specific_data_per_cluster.ipynb		region-specific_data_per_cluster.ipynb
script_to_change_file_names.ipynb		script_to_change_file_names.ipynb

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cells activity, voxel_to_volume in tissue conversion, density and stats

brain-mapping cfos light-sheet-microcopy neuroscience tdt

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