Published March 31, 2026 | Version v1
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ReGenSeq Test Image Sets

Authors/Creators

  • 1. ROR icon New York Genome Center

Description

This dataset contains raw 12 bit imaging data for a specific field of view (FOV) defined by the coordinates below. The data is organized into "RoughScan" for initial FOV assessment and "focus_stack" for Z-position optimization.

# FOV Specifications
- Flow Cell: A
- Lower Left (x, y): 17.462, 35.5
- Upper Right (x, y): 15.768, 34.252

# Directory Structure
The repository contains the following tar.gz archives of
- RoughScan.tar.gz: Contains out-of-focus tile images.
- focus_stack.tar.gz/: Contains Z-stacks for focus optimization.


# Data Descriptions
1. RoughScan.tar.gz
This tarball contains initial scans used to visualize the FOV. These images are intentionally out of focus.
- Channels: 4 unique channels (558, 610, 687, 740).
- Tiles: 3 x tiles (10292, 10607, 10922) per channel.
- Metadata: .txt files include specific scan parameters (e.g., meta_RoughScan...).

2. focus_stack.tar.gz (focus_stack/ & focus_stack.tar.gz)
This tarball contains a series of images taken at different Z-heights to determine the optimal focus position.
- Channels: 4 unique channels (558, 610, 687, 740).
- Format: Images are labeled cXXX_fY.tiff, where XXX is the channel and Y is the frame index.
- Mechanism: The frame index corresponds to the relative Z-position of the objective as it moves through the focal plane.

# Usage Notes
- To extract the focus stack: tar -xvzf focus_stack.tar.gz
- To extract the rough scans: tar -xvzf RoughScan.tar.gz

Files

README.md

Files (97.6 MB)

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Additional details

Software

Repository URL
https://github.com/ReGenSeq