Inferring relationships among major psychiatric disorders in a resting-state functional connectivity-informed embedding space.
Paper
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The authors' code
Python · 33 lines · 1.2 KB · no license
- from scipy import linalg
- def calculate_frechet_distance(mu1, sigma1, mu2, sigma2, eps=1e-6):
- mu1 = np.atleast_1d(mu1)
- mu2 = np.atleast_1d(mu2)
- sigma1 = np.atleast_2d(sigma1)
- sigma2 = np.atleast_2d(sigma2)
- assert mu1.shape == mu2.shape, "Training and test mean vectors have different lengths"
- assert sigma1.shape == sigma2.shape, "Training and test covariances have different dimensions"
- diff = mu1 - mu2
- # product might be almost singular
- covmean, _ = linalg.sqrtm(sigma1.dot(sigma2), disp=False)
- if not np.isfinite(covmean).all():
- msg = "fid calculation produces singular product; adding %s to diagonal of cov estimates" % eps
- warnings.warn(msg)
- offset = np.eye(sigma1.shape[0]) * eps
- covmean = linalg.sqrtm((sigma1 + offset).dot(sigma2 + offset))
- # numerical error might give slight imaginary component
- if np.iscomplexobj(covmean):
- if not np.allclose(np.diagonal(covmean).imag, 0, atol=1e-3):
- m = np.max(np.abs(covmean.imag))
- raise ValueError("Imaginary component {}".format(m))
- covmean = covmean.real
- tr_covmean = np.trace(covmean)
- return diff.dot(diff) + np.trace(sigma1) + np.trace(sigma2) - 2 * tr_covmean
fid.py at commit fb2c30b, no license · at the source
Overview
- Department of Computational Brain Imaging, Advanced Telecommunication Research Institute International (ATR),Kyoto, Japan
- Center for Advanced Intelligence Project, RIKEN,Tokyo, Japan
- Department of Neural Computation for Decision Making, Advanced Telecommunication Research Institute International (ATR),Kyoto, Japan
- Department of Biomedical Data Science, School of Medicine, Fujita Health University,Aichi, Japan
- International Center for Brain Science, Fujita Health University,Aichi, Japan
Abstract
The abstract is not reproduced here: the paper's license (CC BY-NC-ND) does not allow it. Read it in the paper, at the publisher or on Europe PMC.
Repository
Its files are read in the Code ↔ Paper reader above.
LeonBai/rsFC_embedding
fb2c30b6e6daa3e2b67383ccc29757faa1cc9f69, 7 June 2024Availability: 1 check, the latest on 29 September 2026: the link answers
- 29 September 2026: the link answers
3 files
- fid.py, Python, 33 lines
- relation-embedding.py, Python, 278 lines
- README.md, Text, 27 lines
Code availability statement
The paper has a code availability statement. Its license (CC BY-NC-ND) does not allow reproducing it here; in short, from what the harvester recognized in it:
- it points to the authors' code: LeonBai/
rsFC_embedding
Read it in the paper: doi.org/10.1038/s41540-026-00699-y.
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- no match between paragraphs and code yet;
- neither the text of the paper nor the code itself.
Its JSON (tracing-map.json) is deposited on Zenodo with its DOI once the map is validated.
Data
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Data availability statement
The paper has a data availability statement. Its license (CC BY-NC-ND) does not allow reproducing it here; in short, from what the harvester recognized in it:
- no repository, dataset or request procedure was recognized in it
Read it in the paper: doi.org/10.1038/s41540-026-00699-y.
Versions
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Version 1, 29 September 2026: the first record
Recorded: type, language, journal, volume, issue, pages, dates, 4 authors, 3 keywords, 11 MeSH terms, 2 funders, 47 references.
Cite
This paper
Bai, W., Yamashita, O., Sakai, Y., & Yoshimoto, J. (2026). Inferring relationships among major psychiatric disorders in a resting-state functional connectivity-informed embedding space. NPJ systems biology and applications, 12(1), 82. https://
BibTeX
@article{bai2026inferrin
author = {Bai, Wenjun and Yamashita, Okito and Sakai, Yuki and Yoshimoto, Junichiro},
title = {{Inferring relationships among major psychiatric disorders in a resting-state functional connectivity-informed embedding space}},
journal = {NPJ systems biology and applications},
year = {2026},
month = apr,
volume = {12},
number = {1},
pages = {82},
publisher = {Nature Publishing Group},
issn = {2056-7189},
doi = {10.1038/
url = {https://
pmid = {41942500},
pmcid = {PMC13249975}
}
RIS
TY - JOUR
AU - Bai, Wenjun
AU - Yamashita, Okito
AU - Sakai, Yuki
AU - Yoshimoto, Junichiro
TI - Inferring relationships among major psychiatric disorders in a resting-state functional connectivity-informed embedding space
T2 - NPJ systems biology and applications
J2 - NPJ Syst Biol Appl
PY - 2026
DA - 2026/
VL - 12
IS - 1
SP - 82
SN - 2056-7189
PB - Nature Publishing Group
DO - 10.1038/
UR - https://
LA - en
ER -
CSL-JSON
{
"id": "10.1038/
"type": "article-journal",
"title": "Inferring relationships among major psychiatric disorders in a resting-state functional connectivity-informed embedding space",
"container-title": "NPJ systems biology and applications",
"author": [
{
"family": "Bai",
"given": "Wenjun"
},
{
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"given": "Okito"
},
{
"family": "Sakai",
"given": "Yuki"
},
{
"family": "Yoshimoto",
"given": "Junichiro"
}
],
"container-title-short":
"volume": "12",
"issue": "1",
"page": "82",
"DOI": "10.1038/
"PMID": "41942500",
"PMCID": "PMC13249975",
"ISSN": "2056-7189",
"publisher": "Nature Publishing Group",
"URL": "https://
"language": "en",
"issued": {
"date-parts": [
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2026,
4,
6
]
]
}
}
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