---
license: cc-by-nc-4.0
language:
- en
tags:
- eyewire
- retina
- em
- morphologies
pretty_name: Eyewire II - Resource paper - Data
size_categories:
- 10K<n<100K
---

# Eyewire II - Resource paper - Data

Data accompanying the Eyewire II resource paper. Consumed by [eyewire2-functional-analysis](https://github.com/eyewire2/eyewire2-functional-analysis) and [eyewire2-figures](https://github.com/eyewire2/eyewire2-figures) — see those repos' READMEs for how to download and place this data.

## Contents

- `data-2p/` — preprocessed 2P calcium-imaging data (5 recording fields), stored as parquet files. See [data-2p/README.md](data-2p/README.md).
  - `smh/` — raw ScanM stimulus header files, one per recording field/stimulus.
  - `stimuli/` — QDSpy stimulator scripts and stimulus descriptions (chirp, moving bar, mouse-cam movies). See [data-2p/stimuli/README.md](data-2p/stimuli/README.md).
- `data-em/`
  - `dataframes/` — EM-derived analysis dataframes.
    - `df_all_neurons_*.parquet` — dataframe holding cell information
    - `df_ribbons_*.parquet` — dataframe holding ribbon information
    - `fig8_df_rbc_celltype_*.parquet` — dataframe for figure 8
    - `fig8_df_rbc_synapse_*.parquet` — dataframe for figure 8
  - `misc/`
    - `Movie_tissue-and-overview-supplemental-1.mp4` — Movie of EM stack
- `images/`
  - `highres-images-2p/` — `GCL0.tif` … `GCL4.tif`. high-res versions of the five 2P recording fields
  - `em-fields/` — images in EM of the five 2P fields
- `spreadsheets/` — master proofreading spreadsheets maintained in [eyewire2-master-sheet-cleanup](https://github.com/eyewire2/eyewire2-master-sheet-cleanup):
  - `Eyewire II Proofread Cells Main List - All Cells {date}.csv` — the cell list (WIP)
  - `Eyewire II Proofread Cells Main List - All BCs {date}.csv` — the current bipolar-cell list (WIP)
  - `Eyewire II Proofread Cells Main List - All Glia {date}.csv` — the glia list (WIP)
  - `Eyewire II Proofread Cells Main List - EM-2p-mapping {date}.csv` — known EM-cell ↔ 2P-ROI correspondences, used to fit the 2P-to-EM coordinate registration
  - `Eyewire II Proofread Cells Main List - Cell types and properties {date}.csv` — current cell type description (WIP)
- `swc/`, `swc.zip`, `swc-examples.zip` — EM neuron skeletons in SWC format. `swc.zip` contains skeletons for all cells used in the paper (optional download); `swc-examples.zip` contains just the subset shown in the figures. `swc/` itself isn't committed (see `.gitignore`) — unzip one of the archives into it locally.
- `track_proofreading/`, `track_proofreading.zip` — per-cell proofreading changelogs (`changelogs_csv/segid_changelog_df_<segid>_<name>.csv`), one CSV per segment ID recording its proofreading edit history. Like `swc/`, only the zipped version is committed.