computational

Subfield: 117 papers with a page, 96 of them with their authors' code.

Friday, 25 September 2026 (1 paper)

[1] Code ↔ Paper doi: [paper, repository]

Going deeper with morphologically detailed neural networks by simulation-based gradient propagation

Journal: Frontiers in computational neuroscience

Authors' code: MS-GEB/DeepDendrite-modularization (Apache-2.0)

Status: code verified, 1,731 files readable

Friday, 18 September 2026 (1 paper)

[2] Code ↔ Paper doi:10.1523/eneuro.0283-26.2026 [paper, repository]

A Cortico-Basal Ganglia-Thalamic Network Model Linking Intermittent Postural Control to Sway-Related Beta-Band Oscillations.

Journal: eNeuro

Authors' code: nomura-taishin/cbgt-intermittent-postural-control (Apache-2.0)

Status: code verified, 12 files readable, 4 matches

Thursday, 17 September 2026 (1 paper)

[3] Code ↔ Paper doi:10.1007/s00422-026-01063-3 [paper, repository]

Increased firing rates monotonically expand neuronal coding bandwidth.

Journal: Biological cybernetics

Authors' code: bendalab/punitmodel (GPL-3.0), doi.gin.g-node.org/10.12751/g-node.5b08du (no license)

Status: code verified, 11 files readable, 10 matches

Wednesday, 16 September 2026 (1 paper)

[4] Code ↔ Paper doi:10.1007/s12021-026-09784-3 [paper, repository]

Estimating Mutual Information and Pearson Correlation on Neural Evoked Responses.

Journal: Neuroinformatics

Authors' code: AaltoImagingLanguage/micorr (GPL-3.0)

Status: code verified, 29 files readable, 1 match

Tuesday, 8 September 2026 (3 papers)

[5] doi:10.1162/imag.a.1340 [paper, data]

Biophysical simulations of fMRI responses using realistic microvascular models: Insights into distinct hemodynamics in humans and mice.

Journal: Imaging neuroscience (Cambridge, Mass.)

Status: data only, 1 dataset cited

[6] Code ↔ Paper doi:10.1162/imag.a.1350 [paper, repository]

Clarifying and extending permutation tests on brain map correspondence through mixed-effects modeling.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: spin-test/spin-test (MIT), frantisekvasa/rotate_parcellation (MIT), qcwang77/brainmap-bootstrap (no license)

Status: code verified, 103 files readable, 2 matches

[7] Code ↔ Paper doi:10.1371/journal.pcbi.1014701 [paper, repository]

Computer models predict differential dendritic vulnerability with ischemia and spreading depression.

Journal: PLoS computational biology

Authors' code: modeldb:244688 (no license), modeldb:185858 (no license), modeldb:2017004 (no license)

Status: code verified

Friday, 4 September 2026 (1 paper)

[8] Code ↔ Paper doi:10.7554/elife.108208 [paper, repository]

Realistic coupling enables flexible macroscopic traveling waves in the mouse cortex.

Journal: eLife

Authors' code: figshare 29410397 (CC-BY-4.0)

Status: code verified, 16 files readable, 1 match

Tuesday, 1 September 2026 (2 papers)

[9] Code ↔ Paper doi:10.1098/rstb.2024.0461 [paper, repository]

Shallow recurrent decoders for neural and behavioural dynamics.

Journal: Philosophical transactions of the Royal Society of London. Series B, Biological sciences

Authors' code: amysrude/neuralSHRED (no license), meganebers/mobileSHRED (no license)

Status: code verified, 27 files readable, 5 matches

[10] doi:10.1002/sim.70712 [paper, data]

A Bayesian Spatiotemporal Model for Joint Estimation of Brain Activation and Connectivity in fMRI Studies.

Journal: Statistics in medicine

Status: data only, 2 datasets cited

Wednesday, 26 August 2026 (1 paper)

[11] Code ↔ Paper doi:10.1371/journal.pcbi.1014673 [paper, repository]

Modeling the influences of non-local connectomic projections on geometrically constrained cortical dynamics.

Journal: PLoS computational biology

Authors' code: DynamicsAndNeuralSystems/geometricFNPmodel (GPL-3.0)

Status: code verified, 28 files readable, 3 matches

Tuesday, 25 August 2026 (1 paper)

[12] doi:10.1162/netn.a.586 [paper, data]

Effects of light on brain-state dynamics and energy landscape.

Journal: Network neuroscience (Cambridge, Mass.)

Status: data only, 1 dataset cited

Monday, 24 August 2026 (1 paper)

[13] doi:10.3389/fncom.2026.1844662 [paper, data]

Quantifying cortex-wide traveling brain waves of complex patterns with a graph-based algorithm.

Journal: Frontiers in computational neuroscience

Status: data only, 1 dataset cited

Friday, 21 August 2026 (1 paper)

[14] Code ↔ Paper doi:10.1371/journal.pcbi.1014617 [paper, repository]

An in silico framework for dissecting the mechanistic origins of in vivo recorded neuronal activity.

Journal: PLoS computational biology

Authors' code: mpinb.github.io/in_silico_framework (no license), pypi.org/project/isf-pandas-msgpack (no license)

Status: code verified

Wednesday, 19 August 2026 (1 paper)

[15] Code ↔ Paper doi:10.3389/fncom.2026.1760701 [paper, repository]

Analyzing rescaling, discretization, and linearization in RNNs for neural system modeling.

Journal: Frontiers in computational neuroscience

Authors' code: katejarne/Analyzing_Rescaling_Discretization_Linearization_in_RNNs (no license)

Status: dead link

Tuesday, 18 August 2026 (1 paper)

[16] doi:10.2147/jpr.s604974 [paper, data]

Normative Modeling of EEG Complexity Reveals Cortical Rigidity Associated with Pain Severity in Chronic Pain.

Journal: Journal of pain research

Status: data only, 1 dataset cited

Monday, 17 August 2026 (2 papers)

[17] Code ↔ Paper doi:10.7554/elife.104262 [paper, repository]

A behavioral architecture for realistic simulations of <i>Drosophila</i> larva locomotion and foraging.

Journal: eLife

Authors' code: larvaworld.readthedocs.io (no license)

Status: code verified

[18] Code ↔ Paper doi:10.1371/journal.pcbi.1013942 [paper, repository]

Reconciling contradictory models of subthalamic nucleus contributions to basal ganglia beta oscillations.

Journal: PLoS computational biology

Authors' code: kanaptse/BG-Oscillation-Synergy-Suppression (no license)

Status: code verified, 18 files readable, 12 matches

Friday, 14 August 2026 (1 paper)

[19] Code ↔ Paper doi:10.1016/j.celrep.2026.117852 [paper, repository]

Graph theory identifies altered prefrontal microcircuit organization in Shank3 mice, a mouse Model of autism.

Journal: Cell reports

Authors' code: Zenodo 21490732 (CC-BY-4.0), liang-bo/AutoStereota (MIT)

Status: code verified, 62 files readable, 4 matches

Friday, 7 August 2026 (3 papers)

[20] Code ↔ Paper doi:10.1007/s00422-026-01048-2 [paper, repository]

A quality measure for repeating multiple-unit spike patterns.

Journal: Biological cybernetics

Authors' code: Zenodo 18424512 (CC-BY-4.0)

Status: code verified, 5 files readable, 1 match

[21] Code ↔ Paper doi:10.1038/s41526-026-00644-7 [paper, repository]

A computational model of altered neuronal activity in altered gravity.

Journal: NPJ microgravity

Authors' code: camillegontier/neuron_microgravity (MIT)

Status: code verified, 13 files readable, 2 matches

[22] Code ↔ Paper doi:10.1007/s11571-026-10522-3 [paper, repository]

Acetylcholine enhances deviance detection in Hodgkin-Huxley neuronal networks.

Journal: Cognitive neurodynamics

Authors' code: Zenodo 17072341 (MIT)

Status: code verified

Thursday, 6 August 2026 (1 paper)

[23] Code ↔ Paper doi:10.1371/journal.pcbi.1014222 [paper, repository]

Neural population models for EEG: From Canonical models to alternative model structures.

Journal: PLoS computational biology

Authors' code: NinaOmejc/ENEEGMA (MIT)

Status: code verified, 83 files readable, 16 matches

Monday, 3 August 2026 (1 paper)

[24] Code ↔ Paper doi:10.1371/journal.pcbi.1014576 [paper, repository]

A synthetic 3D human cerebrovascular model informed by histology for simulating the cortical depth-dependent BOLD fMRI signal.

Journal: PLoS computational biology

Authors' code: baezprecisionimaging-source/3dVAMOS (GPL-3.0)

Status: code verified, 1 file readable

Saturday, 1 August 2026 (1 paper)

[25] Code ↔ Paper doi:10.1002/hbm.70600 [paper, repository]

A Data-Driven Closed-Loop Control Approach to Drive Neural State Transitions for Mechanistic Insight.

Journal: Human brain mapping

Authors' code: humml-lab/fmri-control (MIT)

Status: code verified, 32 files readable, 11 matches

Friday, 31 July 2026 (1 paper)

[26] Code ↔ Paper doi:10.1007/s10548-026-01240-4 [paper, repository]

Back to the Future of qEEG: Lifespan Normative Modeling of Spectral Ratios and Functional Indices with Potential Applications to Therapeutic Monitoring.

Journal: Brain topography

Authors' code: CCC-members/HarMNqEEG (GPL-3.0), oldgandalf/Normatives-spectral-based-indexes-from-EEG-resting-state (no license)

Status: code verified, 50 files readable, 2 matches

Thursday, 30 July 2026 (1 paper)

[27] Code ↔ Paper doi:10.1371/journal.pcbi.1014577 [paper, repository]

Combining sampling and attractor dynamics in spiking models of head direction systems.

Journal: PLoS computational biology

Authors' code: michnard/sampl_attract_HD (GPL-3.0)

Status: code verified, 7 files readable

Wednesday, 29 July 2026 (1 paper)

[28] Code ↔ Paper doi:10.1113/jp290729 [paper, repository]

Modelling the memory of unmyelinated axons: Integration of a data-driven approach with physiological memory concept.

Journal: The Journal of physiology

Authors' code: Zenodo 17182121 (CC-BY-4.0), digital-c-fiber/modelling-of-memory-in-unmyelinated-axons (BSD-3-Clause)

Status: code verified, 15 files readable

Monday, 27 July 2026 (1 paper)

[29] Code ↔ Paper doi:10.1162/imag.a.1317 [paper, repository]

Bayesian insights into exchange and restriction in gray matter diffusion MRI.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: mjallais/NEXI_SANDIX_uGUIDE (no license)

Status: code verified, 9 files readable, 1 match

Friday, 24 July 2026 (1 paper)

[30] Code ↔ Paper doi:10.1073/pnas.2610049123 [paper, repository]

A unified machine-learning framework for ab initio multiscale modeling of liquids.

Journal: Proceedings of the National Academy of Sciences of the United States of America

Authors' code: annatbui/mlip-neuraldft (GPL-3.0), annatbui/GCMC (GPL-3.0)

Status: code verified, 24 files readable, 4 matches

Tuesday, 21 July 2026 (1 paper)

[31] Code ↔ Paper doi:10.1371/journal.pcbi.1014523 [paper, repository]

Coordinative structures as scale-free networks: Cascade and percolation dynamics in motor learning with empirical validation.

Journal: PLoS computational biology

Authors' code: pcw8531/Coordinative-structures-scale-free-networks (MIT), Zenodo 20694466 (MIT)

Status: code verified, 12 files readable, 14 matches

Monday, 20 July 2026 (2 papers)

[32] Code ↔ Paper doi:10.3758/s13428-026-03122-w [paper, repository]

Modeling intraindividual variability in affect (MIVA): Formalized theoretical approach, computational model, and parameter recovery study.

Journal: Behavior research methods

Authors' code: OSF spxf8 (no license)

Status: code verified, 5 files readable, 5 matches

[33] doi:10.3389/fncom.2026.1799705 [paper, data]

Structural synaptogenesis superior to functional modulation in a pruning-based recurrent network model of OCD.

Journal: Frontiers in computational neuroscience

Status: data only, 1 dataset cited

Friday, 17 July 2026 (3 papers)

[34] Code ↔ Paper doi:10.1016/j.isci.2026.116776 [paper, repository]

Selective perturbation of mirror and non-mirror neurons in an in silico model of the action observation network.

Journal: iScience

Authors' code: lucaguglielmi97/AON_RNN (MIT), tensorflow.org/;rrid:scr_016345 (no license)

Status: code verified, 4 files readable

[35] doi:10.1162/imag.a.1303 [paper, data]

Composite reaction time and variability correlate with whole-brain white-matter characteristics.

Journal: Imaging neuroscience (Cambridge, Mass.)

Status: data only, 2 datasets cited

[36] Code ↔ Paper doi:10.1093/oons/kvag006 [paper, repository]

Social disconnection in the brain: loneliness and age across networks using graph theory.

Journal: Oxford open neuroscience

Authors' code: OSF p6srv (no license)

Status: code verified, 7 files readable, 7 matches

Friday, 10 July 2026 (1 paper)

[37] Code ↔ Paper doi:10.1016/j.isci.2026.116705 [paper, repository]

Spatiotemporal characteristics of visual cortical responses to transpalpebral electrical stimulation.

Journal: iScience

Authors' code: Zenodo 20730362 (CC-BY-4.0)

Status: code verified, 37 files readable

Thursday, 9 July 2026 (2 papers)

[38] Code ↔ Paper doi:10.1371/journal.pcbi.1014432 [paper, repository]

Spiking neurons as predictive controllers of linear systems.

Journal: PLoS computational biology

Authors' code: gitlab.socsci.ru.nl/2023-phd-paolo-agliati/spiking-neurons-as-predictive-controllers-of-linear-systems (CC-BY-4.0)

Status: code verified, 11 files readable, 8 matches

[39] Code ↔ Paper doi:10.1002/mrm.70468 [paper, repository]

A Realistic In Silico Brain Phantom for Quantifying Susceptibility Anisotropy-Induced Error in Susceptibility Separation.

Journal: Magnetic resonance in medicine

Authors' code: neuropoly/Susceptibility-Separation-Phantom (MIT)

Status: code verified, 17 files readable, 5 matches

Tuesday, 7 July 2026 (1 paper)

[40] doi:10.7554/elife.107955 [paper, data]

Multiple event segmentation mechanisms in the human brain.

Journal: eLife

Status: data only, 1 dataset cited

Monday, 6 July 2026 (1 paper)

[41] Code ↔ Paper doi:10.1371/journal.pcbi.1014435 [paper, repository]

Predictive coding explains asymmetric connectivity in the brain: A neural network study.

Journal: PLoS computational biology

Authors' code: khanrom/Feedback_Grasping (CC-BY-4.0)

Status: code verified, 67 files readable, 7 matches

Friday, 3 July 2026 (1 paper)

[42] doi:10.3390/s26134232 [paper, data]

HRL-Det: Hierarchical Reinforcement Learning for Sequential Object Detection in Aerial Imagery.

Journal: Sensors (Basel, Switzerland)

Status: data only, 1 dataset cited

Thursday, 2 July 2026 (1 paper)

[43] doi:10.3390/s26134186 [paper, data]

CMEpiNet: Complex-Valued Multimodal Epilepsy Detection Network Model.

Journal: Sensors (Basel, Switzerland)

Status: data only, 1 dataset cited

Wednesday, 1 July 2026 (4 papers)

[44] Code ↔ Paper doi:10.1093/genetics/iyag107 [paper, repository]

Neural posterior estimation for population genetics.

Journal: Genetics

Authors' code: kr-colab/popgen-npe (MIT)

Status: code verified, 64 files readable, 21 matches

[45] Code ↔ Paper doi:10.1111/desc.70208 [paper, repository]

Computational Modeling of Sequential Dependencies in Mother-Child Social Interaction and Associations to Empathic Responses.

Journal: Developmental science

Authors' code: EMYEYK/Seq.Dep.study (no license)

Status: code verified, 1 file readable

[46] Code ↔ Paper doi:10.1093/molbev/msag157 [paper, repository]

Severe bottleneck of ancient Homo populations: insights from computational modeling and relevant fossil evidence.

Journal: Molecular biology and evolution

Authors' code: Zenodo 19435195 (CC-BY-4.0)

Status: code verified

[47] Code ↔ Paper doi:10.3390/e28070738 [paper, repository]

Probabilistic Forecasting and Information-Theoretic Analysis of Multivariate fMRI Dynamics.

Journal: Entropy (Basel, Switzerland)

Authors' code: ab126/fmri_forecasting (Apache-2.0), Zenodo 20341604 (Apache-2.0)

Status: code verified, 59 files readable, 20 matches

Tuesday, 30 June 2026 (1 paper)

[48] doi:10.1038/s41467-026-75092-8 [paper, data]

Video-rate gigapixel ptychography via space-time neural field representations.

Journal: Nature communications

Status: data only, 1 dataset cited

Monday, 29 June 2026 (1 paper)

[49] Code ↔ Paper doi:10.1371/journal.pcbi.1014458 [paper, repository]

Neuronal excitability and parameter variability in the Hodgkin-Huxley model.

Journal: PLoS computational biology

Authors' code: alon67/HodgkinHuxleyVariability (no license)

Status: code verified, 24 files readable, 14 matches

Thursday, 25 June 2026 (2 papers)

[50] Code ↔ Paper doi:10.7554/elife.99611 [paper, repository]

Intrinsic properties link a network model to zebra finch song.

Journal: eLife

Authors' code: doi:10.5061/dryad.wdbrv162x (no license)

Status: code verified

[51] Code ↔ Paper doi:10.1038/s41467-026-74466-2 [paper, repository]

Neuromorphic hierarchical modular reservoirs.

Journal: Nature communications

Authors' code: netneurolab/conn2res (BSD-3-Clause), netneurolab/netneurotools (BSD-3-Clause), netneurolab/milisav_hierarchical_modularity (BSD-3-Clause), Zenodo 20360160 (BSD-3-Clause)

Status: code verified, 167 files readable, 16 matches

Wednesday, 24 June 2026 (2 papers)

[52] Code ↔ Paper doi:10.1038/s41467-026-74243-1 [paper, repository]

Spiking neural network decoders of finger forces from high-density intramuscular microelectrode arrays.

Journal: Nature communications

Authors' code: FarahBaracat/snn-fingerforce-decoding (no license), Zenodo 19724261 (CC-BY-4.0)

Status: code verified, 114 files readable, 14 matches

[53] Code ↔ Paper doi:10.1038/s41467-026-74215-5 [paper, repository]

Multi-metric evaluations of acute psychedelic effects on fMRI brain entropy.

Journal: Nature communications

Authors' code: anders-s-olsen/CopBET (no license), Zenodo 19914432 (CC-BY-4.0)

Status: code verified, 454 files readable, 17 matches

Monday, 22 June 2026 (1 paper)

[54] Code ↔ Paper doi:10.1162/imag.a.1282 [paper, repository]

Metabolic syndrome severity and the energetic cost of brain network transitions: A normative modeling study of accelerated brain aging.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: phs9416/UKB_MetS_NCT (no license)

Status: code verified, 13 files readable, 10 matches

Tuesday, 16 June 2026 (1 paper)

[55] Code ↔ Paper doi:10.1038/s41467-026-74299-z [paper, repository]

Discovering multiscale deep formulas in complex systems via neural-guided lambda calculus.

Journal: Nature communications

Authors' code: yhqjohn/deflex (MIT)

Status: code verified, 45 files readable, 5 matches

Monday, 15 June 2026 (2 papers)

[56] doi:10.1038/s41598-026-57930-3 [paper, data]

Accurately modeling resting-brain functional connectivity using hypergraph neural field-Fourier deep neural network.

Journal: Scientific reports

Status: data only, 1 dataset cited

[57] Code ↔ Paper doi:10.1162/imag.a.1269 [paper, repository]

From early to contemporary normative modeling: Mapping individual differences in neurophysiological signals.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: Zenodo 15441320 (GPL-3.0), ml4pnp/meganorm (GPL-3.0)

Status: code verified, 45 files readable, 8 matches

Sunday, 14 June 2026 (1 paper)

[58] doi:10.1038/s41598-026-54109-8 [paper, data]

A computational model to describe multi-regional brain architecture during neurodegeneration in Alzheimer's disease.

Journal: Scientific reports

Status: data only, 1 dataset cited

Wednesday, 10 June 2026 (2 papers)

[59] Code ↔ Paper doi:10.1371/journal.pcbi.1014378 [paper, repository]

A mean-field model of neural networks with PV and SOM interneurons reveals connectivity-based mechanisms of gamma oscillations.

Journal: PLoS computational biology

Authors' code: Zenodo 20391404 (CC-BY-4.0), Zenodo 20391405 (CC-BY-4.0)

Status: code verified, 2 files readable

[60] Code ↔ Paper doi:10.1038/s44220-026-00669-7 [paper, repository]

Deviations in effective connectivity explain different hallucination subtypes in Parkinson's disease psychosis.

Journal: Nature. Mental health

Authors' code: VMiri/visual-MMN-DCM- (no license), OSF umd89 (no license)

Status: code verified, 8 files readable, 6 matches

Tuesday, 9 June 2026 (1 paper)

[61] Code ↔ Paper doi:10.1002/mrm.70469 [paper, repository]

Laterally Oscillating Trajectory for Undersampling Slices: LOTUS.

Journal: Magnetic resonance in medicine

Authors' code: cfmm/matlab/matmri (MIT), Zenodo 4495476 (CC-BY-4.0)

Status: code verified, 67 files readable, 10 matches

Friday, 5 June 2026 (3 papers)

[62] Code ↔ Paper doi:10.1038/s41467-026-73347-y [paper, repository]

A week in the life of the human brain reveals stable states punctuated by chaotic-like transitions.

Journal: Nature communications

Authors' code: MNobodyWang/WeekLongBrain (no license), Zenodo 18718538 (CC-BY-4.0)

Status: code verified, 70 files readable, 8 matches

[63] Code ↔ Paper doi:10.1162/imag.a.1249 [paper, repository]

Global search metaheuristics for neural mass model calibration.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: domdunstan/Global_NMM_parameter_inference (MIT)

Status: code verified, 12 files readable, 7 matches

[64] Code ↔ Paper doi:10.1016/j.isci.2026.116116 [paper, repository]

Learning stable radiation boundaries for wave simulations via passive neural state-space models.

Journal: iScience

Authors' code: Blizzard-Passage-Lab/NP-SSM_CRBC (no license), Blizzard-Passage-Lab/NP-SSM–CRBC.•Any (no license)

Status: dead link

Wednesday, 3 June 2026 (2 papers)

[65] doi:10.1007/s10237-026-02070-w [paper]

Modification of a poroelastic model for zero porosity: finite element implementation and investigation of fluid mechanics in the perivascular space.

Journal: Biomechanics and modeling in mechanobiology

Status: code on request

[66] Code ↔ Paper doi:10.1007/s10237-026-02067-5 [paper, repository]

Sparse polynomial surrogates for F-actin networks with compliant crosslinkers.

Journal: Biomechanics and modeling in mechanobiology

Authors' code: jpsferreira/UMAT-ABAQUS_library (no license)

Status: code verified, 712 files readable, 3 matches

Tuesday, 2 June 2026 (2 papers)

[67] Code ↔ Paper doi:10.1371/journal.pcbi.1014364 [paper, repository]

A comparative study of simulation-based inference methods for epidemic models with identifiability considerations.

Journal: PLoS computational biology

Authors' code: geunsoojang/EpiSBI (no license)

Status: code verified, 63 files readable, 7 matches

[68] Code ↔ Paper doi:10.1371/journal.pcbi.1014325 [paper, repository]

Assessing the importance of sex and disease-specific anatomy in electrophysiology and mechanical simulations with a newly developed public virtual cohort of four-chamber heart models.

Journal: PLoS computational biology

Authors' code: OpenHeartDevelopers/cemrg-heartbuilder (no license), Zenodo 4593739 (CC-BY-4.0)

Status: code verified, 126 files readable, 11 matches

Monday, 1 June 2026 (3 papers)

[69] Code ↔ Paper doi:10.1002/nbm.70277 [paper, repository]

Hierarchical Bayesian Modelling Improves Microstructural Parameter Mapping in Diffusion and Exchange MRI Data.

Journal: NMR in biomedicine

Authors' code: e-powell/hbm-matlab (MIT), e-powell/hbm-dmipy (MIT)

Status: code verified, 151 files readable, 10 matches

[70] Code ↔ Paper doi:10.1002/hbm.70546 [paper, repository]

ComBat-Predict Enhances Generalizability of Neuroimaging Models to New Sites.

Journal: Human brain mapping

Authors' code: andy1764/ComBatFamily (no license), ntustison/CrossLong (no license), brainchart/Lifespan (no license), Munchkin-233/ComBat-Predict_eval (no license)

Status: code verified, 100 files readable, 5 matches

[71] Code ↔ Paper doi:10.1007/s10936-026-10264-7 [paper, repository]

Assessment Battery for Communication (ABaCo): An Extension of Normative Data to Elderly Individuals.

Journal: Journal of psycholinguistic research

Authors' code: OSF a9t2y (no license)

Status: code verified, 2 files readable

Saturday, 30 May 2026 (1 paper)

[72] Code ↔ Paper doi: [paper, repository]

Self-Rectifying Integrate-and-Fire Neuron and Collaborative Trim Training Framework for SNN-Based EEG Motor Imagery Classification

Journal: Brain sciences

Authors' code: hdumm/SRIF-CT-SNN (no license)

Status: code verified, 9 files readable, 3 matches

Thursday, 28 May 2026 (1 paper)

[73] Code ↔ Paper doi:10.7554/elife.109539 [paper, repository]

Computational mechanisms for temporal integration in the anterior claustrum.

Journal: eLife

Authors' code: Kuenbae/claustrum_computation (MIT)

Status: code verified, 35 files readable, 12 matches

Wednesday, 27 May 2026 (1 paper)

[74] Code ↔ Paper doi:10.1523/jneurosci.1104-25.2026 [paper, repository]

Timbre Encoding in the Inferior Colliculus.

Journal: The Journal of neuroscience : the official journal of the Society for Neuroscience

Authors' code: urmc.rochester.edu/labs/carney (no license), OSF uyn56 (no license), jfritzinger/FritzingerCarney2025-SynthTimbre (no license)

Status: code verified, 236 files readable, 22 matches

Tuesday, 26 May 2026 (2 papers)

[75] Code ↔ Paper doi:10.1162/imag.a.1242 [paper, repository]

Stable individual differences dominate adult brain volume variation until later life.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: EdvardGrodem/brain-trajectories (no license)

Status: code verified, 10 files readable, 2 matches

[76] Code ↔ Paper doi:10.1162/imag.a.1247 [paper, repository]

Evaluating BOLD functional MRI biophysical simulation approaches: Impact of vascular geometry, magnetic field calculations, and water diffusion models.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: jacobchausse/BOLDswimsuite (GPL-3.0)

Status: code verified, 20 files readable, 1 match

Sunday, 24 May 2026 (1 paper)

[77] Code ↔ Paper doi:10.1002/mrm.70446 [paper, repository]

TRACC-PHYSIO: Time-Domain Resolution-Aligned Cross-Correlation to Estimate PHYSIOlogical Coupling and Time Delays in Dynamic MRI.

Journal: Magnetic resonance in medicine

Authors' code: Wen-Imaging-Lab/TRACC_PHYSIO (MIT), Zenodo 18762411 (CC-BY-4.0), wright-adam/TRACC_PHYSIO (MIT)

Status: code verified, 28 files readable, 9 matches

Friday, 22 May 2026 (2 papers)

[78] Code ↔ Paper doi:10.1371/journal.pcbi.1014283 [paper, repository]

Spatial richness of neural magnetic fields.

Journal: PLoS computational biology

Authors' code: figshare 32061105 (CC-BY-4.0)

Status: code verified, 410 files readable, 5 matches

[79] Code ↔ Paper doi:10.1162/imag.a.1234 [paper, repository]

Multiscale parcellation of dynamic causal models of the brain.

Journal: Imaging neuroscience (Cambridge, Mass.)

Authors' code: tszarghami/Parcellation (AGPL-3.0)

Status: code verified, 24 files readable, 9 matches

Thursday, 21 May 2026 (2 papers)

[80] Code ↔ Paper doi:10.1371/journal.pcbi.1014337 [paper, repository]

Fast reconstruction of degenerate populations of conductance-based neuron models from spike times.

Journal: PLoS computational biology

Authors' code: Zenodo 16912160 (CC-BY-4.0), julienbrandoit/automatic-degenerate-cbm (no license), julienbrandoit/Spike2Pop---Bridging-Experimental-Neuroscience-and-Computational-Modeling (MIT)

Status: code verified, 53 files readable, 14 matches

[81] Code ↔ Paper doi:10.3390/biomimetics11050359 [paper, repository]

SE-SNN: Squeeze-and-Excitation-Enhanced Spiking Neural Networks with Learnable Neuron Dynamics for Event-Based Vision.

Journal: Biomimetics (Basel, Switzerland)

Authors' code: chuang-liu-cn/code (no license)

Status: code verified, 29 files readable, 4 matches

Tuesday, 19 May 2026 (1 paper)

[82] Code ↔ Paper doi:10.1038/s42003-026-10256-2 [paper, repository]

Diffusion MRI experimental design optimization for microstructure imaging.

Journal: Communications biology

Authors' code: downloads.cmrr.umn.edu/software (no license)

Status: code verified

Friday, 15 May 2026 (1 paper)

[83] Code ↔ Paper doi:10.1177/11795972251404254 [paper, repository]

Blind Identification of Altered Functional Subnetworks in Alzheimer's Disease Using Resting-State fMRI.

Journal: Biomedical engineering and computational biology

Authors' code: ICA-RAICAR-Pruning/Code (no license)

Status: code verified, 2 files readable

Wednesday, 13 May 2026 (2 papers)

[84] Code ↔ Paper doi:10.1111/cobi.70323 [paper, repository]

Integrating fossil data in ecological niche models to improve predictions of future habitat of Caribbean corals.

Journal: Conservation biology : the journal of the Society for Conservation Biology

Authors' code: supp:PMC13613574/COBI-40-e70323-s014.R (no license)

Status: code verified, 1 file readable, 2 matches

[85] Code ↔ Paper doi:10.1371/journal.pcbi.1013463 [paper, repository]

A multi-frequency whole-brain neural mass model with homeostatic feedback inhibition.

Journal: PLoS computational biology

Authors' code: carlosmig/EEG-Dementias (no license), Zenodo 18841259 (CC-BY-4.0)

Status: code verified, 23 files readable, 17 matches

Tuesday, 12 May 2026 (1 paper)

[86] Code ↔ Paper doi:10.1073/pnas.2521055123 [paper, repository]

Empirical validation of race-neutral normative brain morphometry models across ethnoracially diverse populations.

Journal: Proceedings of the National Academy of Sciences of the United States of America

Authors' code: centilebrain/centilebrain (no license)

Status: code verified, 10 files readable, 2 matches

Wednesday, 6 May 2026 (1 paper)

[87] Code ↔ Paper doi:10.1038/s41598-026-51212-8 [paper, repository]

Uncertainty aware machine learning for bridging simulation and experiment in high throughput materials characterization.

Journal: Scientific reports

Authors' code: jcj7292/USEM (no license)

Status: code verified, 2 files readable, 2 matches

Saturday, 2 May 2026 (2 papers)

[88] doi:10.1186/s12991-026-00664-3 [paper, data]

Normative modeling reveals functional connectivity heterogeneity in internet gaming disorder.

Journal: Annals of general psychiatry

Status: data only, 1 dataset cited

[89] Code ↔ Paper doi:10.1038/s41598-026-48239-2 [paper, repository]

LigGen-a GEN-AI based ligand generation approach for de-novo drug design.

Journal: Scientific reports

Authors' code: neurocare-iiitd/LigGen (no license)

Status: code verified, 19 files readable, 12 matches

Friday, 1 May 2026 (1 paper)

[90] Code ↔ Paper doi:10.1038/s43856-026-01614-6 [paper, repository]

Simulation-based inference at the theoretical limit for fast, robust microstructural MRI with minimal diffusion data.

Journal: Communications medicine

Authors' code: TIB-Lab/SBIDTI (no license), Zenodo 18086195 (CC-BY-4.0)

Status: code verified, 16 files readable, 5 matches

Tuesday, 28 April 2026 (2 papers)

[91] doi:10.1007/s00422-026-01043-7 [paper]

Fluctuation-response relations for a two-stage population of spiking neurons stimulated by common noise.

Journal: Biological cybernetics

Status: code on request

[92] Code ↔ Paper doi:10.1038/s41598-026-50758-x [paper, repository]

Telecommunication-inspired network models of healthy and diseased brains.

Journal: Scientific reports

Authors' code: medusamedusa/time_series_from_AD_fMRI_ (no license), medusamedusa/fMRI_telecommunications (no license)

Status: code verified, 30 files readable, 6 matches

Sunday, 26 April 2026 (1 paper)

[93] Code ↔ Paper doi:10.1002/mrm.70405 [paper, repository]

DeepRelaxo: Fast Mono-Exponential Magnitude Brain R2* Mapping With Reduced Echoes Using Self-Supervised Deep Learning.

Journal: Magnetic resonance in medicine

Authors' code: sunhongfu/DeepRelaxo (MIT)

Status: code verified, 12 files readable, 2 matches

Thursday, 23 April 2026 (1 paper)

[94] Code ↔ Paper doi:10.1038/s41467-026-71961-4 [paper, repository]

Spatiotemporal asymmetries on brain energy landscape uncover system entrapment related to depression severity.

Journal: Nature communications

Authors' code: prantikk/me-ica (no license), ulgenklc/Brain_states (GPL-3.0)

Status: code verified, 244 files readable, 10 matches

Wednesday, 22 April 2026 (2 papers)

[95] Code ↔ Paper doi:10.1523/jneurosci.1762-25.2026 [paper, repository]

Mesocorticostriatal Reinforcement Learning of State Representation and Value with Implications for the Mechanisms of Schizophrenia.

Journal: The Journal of neuroscience : the official journal of the Society for Neuroscience

Authors' code: kenjimoritagithub/OVRNN-RB (no license)

Status: code verified, 22 files readable, 2 matches

[96] Code ↔ Paper doi:10.1162/netn.a.543 [paper, repository]

High-resolution Bayesian Virtual Epileptic Patient using neural field models.

Journal: Network neuroscience (Cambridge, Mass.)

Authors' code: ins-amu/infr_szr_prpgtn (Apache-2.0)

Status: code verified, 76 files readable, 7 matches

Tuesday, 21 April 2026 (1 paper)

[97] Code ↔ Paper doi:10.1093/pnasnexus/pgag134 [paper, repository]

GSP Cochlea: A graph signal processing approach for studying sound encoding.

Journal: PNAS nexus

Authors' code: meliabonomo/GSPcochlea (GPL-3.0)

Status: code verified, 3 files readable

Monday, 20 April 2026 (2 papers)

[98] doi:10.1021/acs.jctc.6c00146 [paper, data]

qNEP: A Highly Efficient Neuroevolution Potential with Dynamic Charges for Large-Scale Atomistic Simulations.

Journal: Journal of chemical theory and computation

Status: data only, 2 datasets cited

[99] Code ↔ Paper doi:10.1016/j.isci.2026.115824 [paper, repository]

Electrophysiologically informed spiking neural networks for fish-inspired navigation with boundary vector cells and hydrostatic pressure cues.

Journal: iScience

Authors' code: OSF ypmfq (no license)

Status: code verified, 11 files readable, 3 matches

Saturday, 18 April 2026 (1 paper)

[100] Code ↔ Paper doi:10.1038/s42003-026-10032-2 [paper, repository]

Data-driven mouse motor thalamus model reveals topography and spatial weight scaling govern spindle dynamics.

Journal: Communications biology

Authors' code: Zenodo 15198488 (CC-BY-4.0), Zenodo 15198487 (CC-BY-4.0)

Status: code verified, 66 files readable, 18 matches

Friday, 17 April 2026 (1 paper)

[101] doi:10.1080/26941899.2026.2619222 [paper, data]

Neurodatascience: Past, Present, and Future.

Journal: Data science in science

Status: data only, 1 dataset cited

Wednesday, 15 April 2026 (2 papers)

[102] Code ↔ Paper doi:10.1371/journal.pcbi.1013382 [paper, repository]

On the role of L-type Ca2+ and BK channels in a biophysical model of cartwheel interneurons.

Journal: PLoS computational biology

Authors' code: researchdata.cab.unipd.it/1615 (no license)

Status: code verified

[103] Code ↔ Paper doi:10.1038/s41598-026-48748-0 [paper, repository]

GPU-accelerated modeling of biological regulatory networks.

Journal: Scientific reports

Authors' code: miilusaskvido/scientificreports-codes](https: (no license)

Status: dead link

Monday, 13 April 2026 (1 paper)

[104] Code ↔ Paper doi:10.3389/fnbot.2026.1761767 [paper, repository]

Trainable movement control using spikes and muscle-twitch dynamics.

Journal: Frontiers in neurorobotics

Authors' code: JordiTi/NeuromorphicPongControl (MIT), Zenodo 17832222 (MIT)

Status: code verified, 45 files readable, 1 match

Sunday, 12 April 2026 (1 paper)

[105] Code ↔ Paper doi:10.1002/mrm.70378 [paper, repository]

Investigating the Sensitivity of the Diffusion MRI Signal to Magnetization Transfer and Permeability via Monte-Carlo Simulations.

Journal: Magnetic resonance in medicine

Authors' code: zhiyuzheng1769/mt-and-permeability-effect-on-two-compartment-dmri-wm-model (Apache-2.0)

Status: code verified, 22 files readable, 9 matches

Thursday, 9 April 2026 (2 papers)

[106] doi:10.1007/s00285-026-02386-2 [paper]

A multiscale theory for network advection- reaction-diffusion.

Journal: Journal of mathematical biology

Status: code on request

[107] Code ↔ Paper doi:10.1038/s41598-026-46419-8 [paper, repository]

Exploring the effect of different neural strategies on the knee joint contact forces during walking in adults.

Journal: Scientific reports

Authors' code: GiorgioD89/ProtoAgingMCMC (Apache-2.0), stanfordnmbl/MatlabStaticOptimization (Apache-2.0), HansUniVie/MuscleCoordinationRetraining (Apache-2.0)

Status: code verified, 32 files readable, 4 matches

Saturday, 4 April 2026 (1 paper)

[108] Code ↔ Paper doi:10.1038/s42003-026-09938-8 [paper, repository]

Representation Transfer via Invariant Input-driven Continuous Attractors for Fast Domain Adaptation.

Journal: Communications biology

Authors' code: Zenodo 16441066 (CC-BY-4.0)

Status: code verified

Friday, 3 April 2026 (1 paper)

[109] Code ↔ Paper doi:10.1371/journal.pcbi.1014162 [paper, repository]

Exploring neural manifolds across a wide range of intrinsic dimensions.

Journal: PLoS computational biology

Authors' code: JFadanni/ExploringNeuralManifolds (MIT)

Status: code verified, 18 files readable, 1 match

Thursday, 2 April 2026 (2 papers)

[110] doi:10.1371/journal.pone.0345287 [paper, data]

Directional leads applied to spinal cord stimulation: A computational modelling study.

Journal: PloS one

Status: data only, 1 dataset cited

[111] Code ↔ Paper doi:10.1007/s00366-026-02313-5 [paper, repository]

A computational framework to predict the spreading of Alzheimer's disease.

Journal: Engineering with computers

Authors' code: mechmat.web.ox.ac.uk/codes (no license)

Status: code verified

Wednesday, 1 April 2026 (4 papers)

[112] Code ↔ Paper doi:10.1007/s12021-025-09759-w [paper, repository]

Limitations of Variational Laplace-Based Dynamic Causal Modelling for Multistable Cortical Circuits.

Journal: Neuroinformatics

Authors' code: asadpouretal/DCM_Multistabilityor (GPL-3.0)

Status: code verified, 122 files readable, 8 matches

[113] Code ↔ Paper doi:10.1038/s41586-026-10301-4 [paper, repository]

Dopaminergic mechanisms of dynamical social specialization.

Journal: Nature

Authors' code: Zenodo 17121126 (CC-BY-4.0)

Status: code verified, 10 files readable, 3 matches

[114] Code ↔ Paper doi:10.3389/fnins.2026.1605209 [paper, repository]

Spiking neural networks provide accurate and time-efficient models for whisker stimulus classification of the awake mouse.

Journal: Frontiers in neuroscience

Authors' code: IGITUGraz/LSM (GPL-3.0), gitlab.rlp.net/salbrec/sdrpml (no license)

Status: code verified, 21 files readable, 3 matches

[115] Code ↔ Paper doi:10.64898/2026.03.31.26349848 [paper, repository]

Mapping Individual Neuroanatomical Alterations to Schizophrenia Psychopathology with Normative Modeling

Journal: medRxiv (preprint)

Authors' code: OSF etdvu (no license), predictive-clinical-neuroscience/braincharts (GPL-3.0)

Status: code verified, 11 files readable, 6 matches

2025 (2 papers)

[116] doi:10.1002/hbm.70354 [paper, data]

Exploring Deep Magnetoencephalography via Thalamo‐Cortical Sleep Spindles

Journal: n/a

Status: data only, 1 dataset cited

[117] Code ↔ Paper doi:10.7554/elife.106753 [paper, repository]

Traveling waves across scales: Different mechanisms but same canonical computation?

Journal: n/a

Authors' code: fchavane/Model_TW (no license)

Status: code verified, 2 files readable, 3 matches