Reply to: “Model mimicry limits conclusions about neural tuning and can mistakenly imply unlikely priors”

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Paper

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The authors' code

MATLAB · 36 lines · 811 B · no license

function gabor = Gabor2D(lambda, theta, phase, stdev, imSize, elCentre)
if nargin==5
elCentre=round(imSize/2);
end
if size(imSize)==1
nRows=imSize;
nCols=imSize;
else
nRows=imSize(2);
nCols=imSize(1);
end
if size(elCentre)==1
yCentre=elCentre;
xCentre=elCentre;
else
yCentre=elCentre(2);
xCentre=elCentre(1);
end
if size(stdev)==1
stdevY=stdev;
stdevX=stdev;
else
stdevY=stdev(1);
stdevX=stdev(2);
end
angle=theta*pi/180; % orientation deg to radians.
phase=phase*pi/180; % phase deg to radians.
sinX=sin(angle)*((2*pi)/lambda);
cosY=cos(angle)*((2*pi)/lambda);
[x,y]=meshgrid(1-yCentre:nRows-yCentre,1-xCentre:nCols-xCentre);
gabor=exp(-(x.^2)/(2*stdevX.^2)-(y.^2)/(2*stdevY.^2)).*sin(sinX*x+cosY*y+phase);

Gabor2D.m, no license · at the source

Overview

Authors: Reuben Rideaux^1,2, Paul M Bays³, William J Harrison⁴

ORCID iDs: Reuben Rideaux, Paul M Bays

Institutions: The University of Sydney (Australia); The University of Queensland (Australia); University of Cambridge (United Kingdom); University of the Sunshine Coast (Australia)

Journal: n/a, volume 16, issue 1, article 6229

Dates: received 20 May 2024; accepted 5 June 2025; published online 7 July 2025

Type: Letter · Language: English

License: none stated

Identifiers: DOI 10.1038/s41467-025-60860-9 · PMCID PMC12234690 · OpenAlex W4412069472

Open access: gold, a free copy (OpenAlex)

Status: code verified

Categories: systems (subfield)

Methods: Machine learning

Keywords: Neuroscience, Evolution

Topic: Neural dynamics and brain function (Cognitive Neuroscience, Neuroscience), according to OpenAlex

Funding: Department of Health | National Health and Medical Research Council (2026318); Department of Education and Training | Australian Research Council (DE210100790)

Citations: cited by 5 papers (Europe PMC); 47 references in the paper

Abstract

No abstract was found for this paper: the paper, at the publisher.

Repository

Its files are read in the Code ↔ Paper reader above.

OSF 65dca

License: none: the authors keep all their rights

State: the link answers, verified on 26 September 2026

Evidence: files inventoried

Size: 1 file

Software Heritage: not checked

Found in: “Code availability”

Not found: README, license file, CITATION.cff, environment file, tests, continuous integration, documentation

Tools: CircStat (1 file), Image Processing Toolbox (1 file)

Availability: 1 check, the latest on 26 September 2026: the link answers (HTTP 200)

26 September 2026: the link answers (HTTP 200)

6 files

Gabor2D.m, MATLAB, 36 lines
bipolarRaisedCos.m, MATLAB, 27 lines
maxContrast.m, MATLAB, 24 lines
polarDistFun.m, MATLAB, 21 lines
raisedCos.m, MATLAB, 34 lines
stimAnalysis_flexibleSFs.m, MATLAB, 98 lines

At the source: osf.io/65dca/?view_only=88e12d759a67413ea4076a664a295798

Code availability statement

The paper has a code availability statement. Its license (none stated) does not allow reproducing it here; in short, from what the harvester recognized in it:

it points to the authors' code: OSF 65dca

Read it in the paper: doi.org/10.1038/s41467-025-60860-9.

Tracing map

Proposed by the machine: these links were found in the paper and verified at the source, without human review. The map will receive a Zenodo DOI once one of the paper's authors has validated it with their ORCID.

What the map holds:

1 repository of the authors' code, each at its verified commit, with its license and how the link was found in the paper;
6 scripts, each with its path and the digest of its content;
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

Datasets cited

doi:10.5061/dryad.m57sd, at Dryad; found in “Data availability”
osf:5ba9y, at OSF; found in “Data availability”

Data availability statement

The paper has a data availability statement. Its license (none stated) does not allow reproducing it here; in short, from what the harvester recognized in it:

it points to 2 datasets: Dryad 10.5061/dryad.m57sd, OSF 5ba9y

Read it in the paper: doi.org/10.1038/s41467-025-60860-9.

Versions

The history of this record: each version stored by the harvester or made by a correction of its authors or of the maintainers of its code, and what changed in its facts. The texts of the paper (its abstract, its availability statements) are not part of it; versions that changed only those are not listed.

Version 1, 27 September 2026: the first record

Recorded: type, language, journal, volume, issue, pages, dates, 3 authors, 2 keywords, 2 funders, 44 references.

Cite

This paper

Rideaux, R., Bays, P. M., & Harrison, W. J. (2025). Reply to: “Model mimicry limits conclusions about neural tuning and can mistakenly imply unlikely priors”. Nature Communications, 16(1), 6229. https://doi.org/10.1038/s41467-025-60860-9

BibTeX

@article{rideaux2025reply, author = {Rideaux, Reuben and Bays, Paul M and Harrison, William J}, title = {{Reply to: “Model mimicry limits conclusions about neural tuning and can mistakenly imply unlikely priors”}}, journal = {Nature Communications}, year = {2025}, volume = {16}, number = {1}, pages = {6229}, publisher = {Nature Publishing Group}, issn = {2041-1723}, doi = {10.1038/s41467-025-60860-9}, url = {https://doi.org/10.1038/s41467-025-60860-9}, pmcid = {PMC12234690} }

RIS

TY - JOUR AU - Rideaux, Reuben AU - Bays, Paul M AU - Harrison, William J TI - Reply to: “Model mimicry limits conclusions about neural tuning and can mistakenly imply unlikely priors” T2 - Nature Communications J2 - Nat Commun PY - 2025 DA - 2025 VL - 16 IS - 1 SP - 6229 SN - 2041-1723 PB - Nature Publishing Group DO - 10.1038/s41467-025-60860-9 UR - https://doi.org/10.1038/s41467-025-60860-9 LA - en ER -

CSL-JSON

{ "id": "10.1038/s41467-025-60860-9", "type": "article-journal", "title": "Reply to: “Model mimicry limits conclusions about neural tuning and can mistakenly imply unlikely priors”", "container-title": "Nature Communications", "author": [ { "family": "Rideaux", "given": "Reuben" }, { "family": "Bays", "given": "Paul M" }, { "family": "Harrison", "given": "William J" } ], "container-title-short": "Nat Commun", "volume": "16", "issue": "1", "page": "6229", "DOI": "10.1038/s41467-025-60860-9", "PMCID": "PMC12234690", "ISSN": "2041-1723", "publisher": "Nature Publishing Group", "URL": "https://doi.org/10.1038/s41467-025-60860-9", "language": "en", "issued": { "date-parts": [ [ 2025 ] ] } }

The tracing map gets a citation of its own once an author has validated it and it has a DOI.

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