Wei et al., 2026. Nature Communications.

Dataset from Wei et al., 2026. Nature Communication. Anterior and posterior retrosplenial cortex form distinct visuospatial circuits in the mouse. Data Structure for Physiology Data Structure (Analyzed I/O) Directly read the corresponding behavioral data (see below) based on the DATA name. phys/ ├── statistic/ # (1) │ ├── DATA_1 ([EXP_DATE]_[ANIMAL_ID]__[EXP_TYPE]_[USER])/ │ ├── plane[N]/ # (2) │ ├── behavior/ # (3) │ ├── cache/ # (4) │ ├── track/ # (5) │ └── suite2p/ # (6) │ └── plane[N]/ ... │ ├── DATA_2/ └── DATA_3/ Folder Details (1) statistic/Stores statistical results and population-level visualization outputs across recordings. (2) plane[N]/Physiological recording data for each optical plane (N = plane index).Includes neuronal activity traces, extracted signals, and ROI information. (3) behavior/Animal behavior data synchronized to recording sessions, including running speed, position, task events, etc. (4) cache/Cache files to avoid redundant computations (e.g., .pkl, .npy, or other serialized intermediate results). (5) track/Camera-based tracking data such as pupil size, locomotion speed, and animal position(e.g., pixviz, facemap). (6) suite2p/Preprocessing outputs from pipelines like Suite2p or Kilosort.For Suite2p, each plane typically contains: F.npy (raw fluorescence traces) Fneu.npy (neuropil traces) ops.npy (Suite2p operations/parameters) Notes Dataset naming convention under phys/: [EXP_DATE]_[ANIMAL_ID]__[EXP_TYPE]_[USER] Example: 210315_YW006__2P_YW Multiple optical planes (plane0, plane1, etc.) are processed and stored independently. The statistic/ folder aggregates analysis across sessions and animals. Data Structure for Behaviors presentation / ├── DATA_1 ([EXP_DATE]_[ANIMAL_ID]__[EXP_TYPE]_[USER])/ │ ├── *.riglog # (1) │ ├── *.stimlog # (2) │ ├── *.prot # (3) │ └── *.prefs # (4) │ ├── DATA_2/ └── DATA_3/ Folder Details (1) .riglogExperimental output file for behavioral hardware timestamps. (2) .stimlogExperimental output file for visual stimulation timestamps (requires synchronization). (3) .protExperimental configuration file for protocol settings(e.g., visual stimulation parameters). (4) .prefsExperimental configuration file for preference settings(e.g., hardware, I/O configuration). Notes These data are generated by the lab’s internal software Stimpy. Parsing package:stimpyp → https://stimpyp.readthedocs.io/en/latest/ Data Structure for Anatomy Directory Overview hist/ ├── ANIMAL_1/ │ ├── raw/ (optional) # (1) │ ├── zproj/ # (2) │ ├── roi/ # (3) │ ├── roi_cpose/ # (3') │ ├── resize/ # (4) │ │ ├── processed/ │ │ │ └── transformations/ │ │ │ └── labelled_regions/ │ │ │ └── parsed_data/ │ ├── resize_overlap/ (optional) # (10) │ └── output_files/ # (for figure generation) │ ├── OTHER_ANIMAL_2/ ├── OTHER_ANIMAL_3/ ├── cache/ # (11) ├── population_analysis_figure1.pdf # (12) ├── population_analysis_figure2.png # (12) ├── ... # (12) └── (more population analysis result files) Folder Details (1) raw/Raw confocal data (e.g., .lsm, .czi, or .tiff formats). Optional. (2) zproj/Z-projection stacks in RGB format, saved separately per channel (r, g, b, o). (3) roi/ROI files generated from manual selections using ImageJ. (3') roi_cpose/ROI files generated using the Cellpose segmentation pipeline (developmental version). (4) resize/Merged ROI stacks, rescaled into an RGB .tif file for registration.Typically uses the blue (DAPI) channel as the registration reference.Example: merging green ROI + red ROI + DAPI.If overlap channels exist, pseudo-coloring is used, and the same transformation matrix must be applied. (5) processed/Processed images after contrast adjustment or rotation. (6) transformations/ (Transformed Images)Registered images after applying transformations. (7) transformations/ (Transformation Matrices).mat files containing transformation matrices for each slice. (8) labelled_regions/Output per ROI generated using the Allen CCF registration pipeline. (9) labelled_regions/parsed_data/Parsed and classified ROI tables (merged into one CSV file) for downstream analysis. (10) resize_overlap/Folder for overlap channels (pseudo-color).Must use the same transformation matrix as the main channels. (11) cache/Stores cached files for population data analysis. (12) Population analysis figures (under hist/)Population analysis result files (e.g., .pdf, .png) are saved directly under hist/, not inside a separate folder. Notes Overlap channels must be processed carefully to ensure consistent registration and transformation. Population-level analysis figures are stored directly under hist/ without additional folder structure.