# The mechanism for directional hearing in fish

This repository contains data related to the manuscript "The mechanism for directional hearing in fish".  
Github: https://github.com/danionella/veith_et_al_2024

## Behavior data
The `behavior` folder contains pickled dataframe objects with fish trajectories around playback events. (5s before playback, 7s after playback, 120fps).
- `65fish_nolla.zip` Data on 65 female and male adult _Danionella cerebrum_ without lateral line ablation.
- `74fish_lla.zip` Data on 74 female and male adult _Danionella cerebrum_ after lateral line ablation.

Load like this (in python):
```
import pandas as pd
df = pd.read_pickle('65fish_nolla.zip')
```
To generate paper figures based on this data, see:
https://github.com/danionella/veith_et_al_2024/tree/main/figures

The subfolder `sleap_model` contains the fish skeleton, parameters, and the trained model that was used to track a single _Danionella cerebrum_ in a 336 x 336 pixel recording, spanning a ~ 11 x 11cm field of view.

## Micro CT data
PMA (phosphomolybdic acid)-stained, adult, male _Danionella cerebrum_.
#### Raw data
`Danionella_cerebrum_PMA_16bit_binned_1p297_oriented_front_1965x1926x3328.raw`  
When opening file in ImageJ Fiji, choose `16-bit Unsigned` and `Little-endian byte order`. Opening as virtual stack is recommended. The voxel size is 1.29702 µm.

#### Segmentation (DragonFly)
`Danionella_cerebrum_PMA_16bit_binned_1p297_oriented_front_1965x1926x3328_cropped_1224x1224x1645_segmentation.ORSSession`  
Dragonfly (https://www.theobjects.com/dragonfly) project file, which contains raw data cropped around the inner ear (1224x1224x1645, anchor at 369,246,412), handlabelled planes, interpolated binary ROIs (interpolated by biomedisa, https://biomedisa.info/), and meshgrids derived from these binary ROIs.

#### Meshgrids (Blender)
`Danionella_cerebrum_PMA_16bit_binned_1p297_oriented_front_1965x1926x3328_cropped_1224x1224x1645_meshgrid.blend`  
This Blender project file contains downsampled meshgrids of segmented inner ear structures and an animation.

## Vibrometry data
The `vibrometry` folder contains the reflectance confocal microscope data of auditory structures of two adult male _Danionella cerebrum_ during sound playback. The Matlab code on https://github.com/danionella/veith_et_al_2024/tree/main/figure_3 produces the motion phase maps presented in Fig. 3 and Extended Data Fig. 11 from these data.