Whole Brain Histogram Analysis for Amyloid PET

A semi‑quantitative analysis method for amyloid PET that does not require normalization

Top 20% gray and white matter ratio (GW-ratio), Skewness, and Mode to mean ratio (MMR)

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Our ANM's Paper on MRI‑Based WBHA

https://doi.org/10.1007/s12149-026-02218-9

https://link.springer.com/article/10.1007/s12149-026-02218-9

Linux Shell FSL Script for brain extraction, generate Top-20% map, and separate Top-20% map into grat matter and white matter (Step 4 to 8)

https://kakuigaku.info/share/PET_and_MRI_Brain_Extraction_SPM.sh

MATLAB Script for generate Histogram, Skewness, MMR, and Top 20% GW-ratio (Step9)

https://kakuigaku.info/share/PET_Nifti_to_skewness_MMR_and_gwratio.m

MATLAB GUI Application for generate Histogram, Skewness, MMR, and Top 20% GW-ratio (Step9')

https://kakuigaku.info/share/WBHA_calculator_ver1.1_for_Windows.zip

https://jp.mathworks.com/products/compiler/matlab-runtime.html

(Version 2025a MATLAB runtime Recommended)

※Due to a bug identified during histogram generation, the previously released GUI version 1.0 has been withdrawn. Please use the latest version, 1.1. The script for the native MATLAB environment remains unaffected and contains no known issues (as of August 2, 2026).

Link

Lin4Neuro: A virtual environment that bundles the software required for brain extraction

https://www.nemotos.net/?page_id=29 (English)

https://www.nemotos.net/?page_id=161 (日本語)

Lin4Neuro (L4N) is based on Ubuntu with XFCE desktop environment. Lin4Neuro includes many useful neuroimaging software packages which developed by Dr. Kiyotaka Nemoto (https://researchmap.jp/k-nemoto?lang=en). The following FSL and SPM12 are also included.

FSL - FMRIB Software Library

https://fsl.fmrib.ox.ac.uk/fsl/docs/

FSL is used to generate mask images from MRI data segmented with SPM. It is also used to extract brain parenchyma from registered PET images, using the mask images created as described above.

SPM12

https://www.fil.ion.ucl.ac.uk/spm/software/spm12/

SPM is used to perform co‑registration and reslicing of PET and structural MRI images, as well as to segment MRI data.

Our labo website (Japanese)

https://www.fmu.ac.jp/education/medicine/department/rad/

Yamakuni's website

https://researchmap.jp/ryoyamakuni?lang=en

Research Findings Report on This Study at Fukushima Medical University Web Site (Japanese/日本語)

https://www.fmu.ac.jp/research/results/seika/2026/20260630.html

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