NeuroPilot Processing Analysis Report
blood_A66
RawNeuroPilot
Folder tag
blood_A66_97b22b5d
Cell-type data
No
Dataset profile
unknown
Representative frame
83
Imaging modality
2p
Colormap
black-to-green
Pixel size
0.709 um/pixel
Frame rate
10 Hz
Imaging modality: 2p (black-to-green colormap for intensity panels). Pixel size defaulted to 0.709 μm/pixel. Frame rate defaulted to 10.0 Hz.
Section A
A. Input Data Overview
A
Raw single frame / STD / MIP
Representative frame = 83; ROI box marks the crop shown below; black-to-green colormap
Source: D:\0_NurMar_shared_files\1_data\ju_data\select...6\A66_A66-freemoving-image-day3 0.tif
Shape
[1395,512,512]
dtype
uint16
fps
10 Hz
pixel size
0.709 μm/pixel
dynamic range
1.04e+04
bleaching drop %
0.0316
SNR
0.356
motion mean px
36
Raw input quality is summarized with the representative single frame, STD, and MIP. The ROI box shows the crop location reused later in the comparison panel. Scale bars use the configured pixel size and all intensity displays follow the selected imaging modality colormap.
Section B
B. Integrated Improvement: Raw vs NeuroPilot
B
Raw vs NeuroPilot main grid (2x3)
Top row = Raw; bottom row = NeuroPilot; white ROI boxes mark the crop location
Source: D:\0_NurMar_shared_files\2_code\NeuroPilot_LLM...OD_test_live_v3\final\final_stack.tif
C
Matched ROI crop grid (2x3)
Crop coordinates = (287,262)-(357,332)
Source: D:\0_NurMar_shared_files\2_code\NeuroPilot_LLM...OD_test_live_v3\final\final_stack.tif
D
Kymograph group
NeuroPilot STD line map + Raw/NeuroPilot kymographs for line 1 and line 2
Source: D:\0_NurMar_shared_files\2_code\NeuroPilot_LLM...OD_test_live_v3\final\final_stack.tif
E
Raw vs NeuroPilot quantitative bars
SNR, motion mean, motion p95 and bleaching are shown as paired bars
Source: D:\0_NurMar_shared_files\2_code\NeuroPilot_LLM...\metrics\comparison_raw_vs_final.json
F
Motion curve
Frame-wise rigid motion magnitude converted to μm using the configured pixel size
Source: D:\0_NurMar_shared_files\2_code\NeuroPilot_LLM...emoving-image-day3 0_rigid_shifts.npy
G
Correlation curve
frame-to-temporal-mean projection correlation
Source: D:\0_NurMar_shared_files\2_code\NeuroPilot_LLM...nal\integrated_correlation_curves.csv
The central comparison uses only Raw vs NeuroPilot, not intermediate denoise-only or registration-only displays. The same representative frame and deterministic crop are reused across all six images; quantitative differences are now shown as paired bar charts, while frame-wise rigid motion is plotted in μm and the correlation panel remains only in this integrated section.
Section C
C. Provenance / Reproducibility
folder tag
blood_A66_97b22b5d
pipeline LLM mode
apply
advisor backend
live
final_stack semantic
last_iter_denoised_output
raw stack path
D:\0_NurMar_shared_files\1_data\ju_data\selected_dat...ood_A66\A66_A66-freemoving-image-day3 0.tif
final stack path
D:\0_NurMar_shared_files\2_code\NeuroPilot_LLM\tmp_p...cs\BLOOD_test_live_v3\final\final_stack.tif
iter params
[{"iter_index": 0,"effective_params": {"sample_mode"...tch_size": 6},"param_source": "llm_apply"}]
missing summary
none
This section records the frozen final_stack semantic, effective iteration parameters, and key artifact provenance consumed by the deterministic report builder.