Ankur Sinha "FranciscoD"Jan 14

I created a #CookieCutter project template for #ComputationalModelling using #NeuroML

(You can use it for non NeuroML models too, or modify it for your own templates)

More information here:

https://ankursinha.in/2025/09/23/a-cookiecutter-template-to-quickstart-neuroml-modelling-projects.html

#ComputationalNeuroscience #Python #Neuroscience #AcademicChatter

A Cookiecutter template to quickstart NeuroML modelling projects - ankursinha.in/blog

Ankur Sinha "FranciscoD"Jun 11, 2025

A new release of #PyNeuroML is available. Please update to get the latest fixes and features. #NeuroML #ComputationalModelling #ComputationalNeuroscience

```
pip install --upgrade pyneuroml
```

Ankur Sinha "FranciscoD"Jun 10, 2025

If you're seeing your #NEST simulator builds fail recently, it's because of a new #Cython release:

https://github.com/nest/nest-simulator/issues/3495

Workaround: fix `cython<3.1.0` for the moment (until new NEST releases with the fix are made)

#ComputationalNeuroscience #ComputationalModelling #Neuroscience #AcademicChatter

Latest Cython release breaks NEST build · Issue #3495 · nest/nest-simulator

Cython 3.1.0 was released on 2025-05-08. It deprecates the "long" data type in favour of "int" (see https://cython.readthedocs.io/en/latest/src/changes.html). This results in the following error du...

GitHub
Ankur Sinha "FranciscoD"May 28, 2025
Generated a quick plot to see usage trends for Open Source Brain v2 (#OSBv2): an integrated #research platform for #neuroscience that indexes multiple model and data sources (#DANDI, #ModelDB, #Biomodels, #Github) and provides compute resources on the #cloud in "workspaces". It also includes specialist applications: #NWBExplorer for working with data in the NeuroData Without Borders (#NWB) format; #NetPyNE-UI for biophysically detailed #ComputationalModelling and a #JupyterLab environment.
Ankur Sinha "FranciscoD"Jan 28, 2025

We are very happy to provide a consolidated update on the #NeuroML ecosystem in our @eLife paper, “The NeuroML ecosystem for standardized multi-scale modeling in neuroscience”: https://doi.org/10.7554/eLife.95135.3

#NeuroML is a standard and software ecosystem for data-driven biophysically detailed #ComputationalModelling endorsed by the @INCF and CoMBINE, and includes a large community of users and software developers.

#Neuroscience #ComputationalNeuroscience #ComputationalModelling 1/x

The NeuroML ecosystem for standardized multi-scale modeling in neuroscience

The NeuroML model description language, with its extensive software ecosystem, supports researchers in the development of FAIR, data-driven, biologically detailed models of neural systems.

eLife
Academic EuropeNov 11, 2024

Job - Alert 🚀

🎓 PHD STUDENT (F/M/D) IN MICROSTRUCTURE MODELLING AND UPSCALING

Deadline: 2024-11-28

Location: Germany, Freiberg, Sachsen

APPLY: https://www.academiceurope.com/job/?id=5854

#hiring #computationalmodelling #geophysicalsciences #Geosciences #MathematicalModelling #PhD #Statistics

Daniel Hoffmann 🌼Oct 30, 2024

Estimate of excess deaths attributable to global warming during hot summer of 2022 in Europe: between about 22000 and 59000.
A small city wiped out.
https://www.nature.com/articles/s41612-024-00783-2

#globalwarming #computationalmodelling

Mortality burden attributed to anthropogenic warming during Europe’s 2022 record-breaking summer - npj Climate and Atmospheric Science

The record-breaking temperatures in Europe during the 2022 summer were associated with over 60,000 heat-related deaths. By combining epidemiological models with detection and attribution techniques, we attribute half of this mortality burden (~56% [95% CI 39–77%]) to anthropogenic warming. Likewise, this applies to all sexes, ages, and heat-related mortality burdens during previous years (2015–2021). Our results urgently call for increasing ambition in adaptation and mitigation.

Nature
Ankur Sinha "FranciscoD"Sep 11, 2024

Update on what I did from weeks 27-36 this year:

https://ankursinha.in/2024/09/06/week-27-36-update.html

#NeuroML #ComputationalNeuroscience #Fedora #OpenSourceBrain #GoogleSummerOfCode #ComputationalModelling #AcademicChatter #FOSS #OpenScience

Week 27--36 update - ankursinha.in/blog

Ankur Sinha "FranciscoD"Sep 11, 2024

#Standardized #NeuroML model of the day (2024-09-11):

Models of Neocortical Layer 5b Pyramidal Cells Capturing a Wide Range of Dendritic and Perisomatic Active Properties, Hay et al 2011

See if on #OpenSourceBrain here:

https://v1.opensourcebrain.org/projects/l5bpyrcellhayetal2011

and on #GitHub here: https://github.com/OpenSourceBrain/L5bPyrCellHayEtAl2011

#ComputationalNeuroscience #ComputationalModelling #Neuroscience #Cortex #Layer5B #FAIR #OpenScience #AcademicChatter

Learn more about NeuroML here: https://docs.neuroml.org

Overview - Layer 5b Pyramidal cell - Hay et al. 2011 - Open Source Brain

Open Source Brain is a resource for sharing and collaboratively developing computational models of neural systems.

lenarddomeAug 22, 2024

My *psp* package received some new updates and bug fixes 🥳🥳 check it out here:

https://cran.r-project.org/web/packages/psp/index.html

#R #rstats #computationalmodelling #cognitivescience

psp: Parameter Space Partitioning MCMC for Global Model Evaluation

Implements an n-dimensional parameter space partitioning algorithm for evaluating the global behaviour of formal computational models as described by Pitt, Kim, Navarro and Myung (2006) <<a href="https://doi.org/10.1037%2F0033-295X.113.1.57" target="_top">doi:10.1037/0033-295X.113.1.57</a>>.