Project Acquisition Modes
Acquisition mode describes how each brain slice was imaged.
It determines which images are required, how registration works, whether detail-image alignment is needed, and whether brain regions come from atlas registration or direct assignment.
4x reference + detail
Choose this mode when each slice has:
- one whole-slice anatomical reference image, usually
4x - one or more
10xor20xdetail images used for analysis
NeuroQP registers the anatomical reference to the atlas, then aligns detail images to that reference.
Use this mode when analysis focuses on a detail field rather than the full high-resolution slice.
High-res whole slice
Choose this mode when the whole brain slice is imaged directly at 10x or 20x.
No separate 4x image is required.
The high-resolution image acts as both anatomical reference and analysis image when assigned the appropriate roles.
NeuroQP runs atlas registration on the high-resolution reference and skips detail-to-reference FFT alignment.
Detail only
Choose this legacy mode only when no whole-slice reference image is available.
Detail-only projects use 10x or 20x detail images without atlas registration. They do not use an Anatomical reference role. Instead, each uploaded whole image is assigned directly to a selected brain region.
Because this mode skips registration, it does not provide atlas-derived region boundaries or the same spatial review workflow as registered projects.
Which mode should I choose?
Choose 4x reference + detail if your acquisition includes a low-magnification overview plus higher-magnification fields.
Choose high-res whole slice if each channel covers the full brain slice at the project detail magnification and should still use atlas registration.
Choose Detail only only for legacy projects with detail images that do not have a whole-slice reference. Detail-only projects skip atlas registration and use direct brain-region assignment instead.
This choice is project-defining and should be made before uploading data.