Emulated-Inc/ca1-cross-day-decoding

CA1 two-photon imaging across days (mouse 97289)

Two open-field recordings of the same mouse's hippocampal CA1, six days apart, as raw two-photon frames with head-position tracking for the earlier day.

Source

Zong, W., Obenhaus, H. A., Skytoen, E. R., et al. (2022). Large-scale two-photon calcium imaging in freely moving mice. Cell 185, 1240-1256, https://doi.org/10.1016/j.cell.2022.02.017. Deposited in the NIRD Research Data Archive, DOI 10.11582/2022.00008, licence CC BY 4.0. Mouse 97289, imaged in CA1 with the MINI2P miniature two-photon microscope while foraging in a square open field, from the deposit's ca1-97289 tarball: sessions 2021-03-16 (day A) and 2021-03-22 (day B), each 26,100 raw ScanImage pages (int16, 256 x 256, the focus alternating between two planes on every page, 14.5 frames per second) with their DeepLabCut tracking.

Contents

20210316_to_20210322/ holds the day pair:

• agent/pair.json: frame counts, plane depths, box sizes and the number of days between the sessions.
• agent/day_a/frames.tif and agent/day_a/tracking.csv: all of day A, with tracking.
• agent/day_b_calibration/frames.tif: the first 5 minutes of day B, frames only.
• judge/day_b_stream/frames.tif: the rest of day B, frames only.

Changes from the source

• Frames are written as acquired, interleaved and unregistered, to plain TIFFs without the ScanImage headers.
• Positions are the midpoint of the two ears in arena centimetres: origin at the bottom-left corner of the box, computed per session from the four tracked box corners, so both days share one frame although the camera moved. Frames with low tracker confidence or impossible geometry are marked reliable = 0 and interpolated, positions are lightly smoothed, and scored marks reliable frames moving faster than 2 cm/s.
• Day B is split in time into its first 5 minutes and the rest.

The authors of the dataset do not endorse these changes.

Licence

Creative Commons Attribution 4.0 International (https://creativecommons.org/licenses/by/4.0/). Please cite Zong et al. (2022) and the NIRD deposit above.