AllenInstitute/bmtk

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Brain Modeling Toolkit

Stars: 335
Forks: 102
Open beginner issues: 0
Indexed issues: 68
Avg merge: 1d 5h
Merged PRs (30d): 6

Dominant language: Python
License: BSD-3-Clause
Last GitHub push: Sep 19, 2026
Latest indexed: Sep 20, 2026
Contributing guide: Contributing guide
Code of conduct: No code of conduct
Beginner labels: No beginner labels indexed

Beginner friendly Everything

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68 open issues indexed

How to download AI CTDB models with AllenSDK Open

Difficulty 2/5 1-3 hours Newbie friendliness 68/100

AllenInstitute/bmtk#468 · Opened Aug 5, 2026
tau_syn_basis and weight coefficients for TF synapses Open

AllenInstitute/bmtk#463 · 1 assignee · Opened Jun 24, 2026
Independent reproducibility/transparency evaluation of BMTK — feedback welcome Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

AllenInstitute/bmtk#457 · Opened Jun 14, 2026
Jupyter notebook tutorial for the V1 model Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

AllenInstitute/bmtk#448 · Opened Apr 23, 2026
Allow different parameters for different nodes in extracellular stimulation in BioNet Open

Difficulty 4/5 3-5 days Newbie friendliness 42/100

AllenInstitute/bmtk#447 · Opened Apr 22, 2026
OverflowError when setting negative synaptic weight PointNet Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

AllenInstitute/bmtk#439 · Opened Sep 18, 2025
Consolidate tutorials Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

AllenInstitute/bmtk#435 · Opened Aug 18, 2025
Feature: Implementation of Bazhenov Sleep Transition Model Open

bug enhancement

Difficulty 5/5 Over a week Newbie friendliness 25/100

AllenInstitute/bmtk#434 · 1 comment · Opened Jul 30, 2025
Unable to provide fast (eg dt=0.1) timestamps for amplitude injection Open

Difficulty 3/5 1-2 days Newbie friendliness 38/100

AllenInstitute/bmtk#429 · 2 comments · Opened Jun 7, 2025
Complete beginner tutorial Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

AllenInstitute/bmtk#423 · Opened Mar 19, 2025
How to reference gap junctions in the configuration file Open

Difficulty 4/5 3-5 days Newbie friendliness 30/100

AllenInstitute/bmtk#415 · Opened Mar 5, 2025
Mismatch between stimulation node and node id with current_clamp Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

AllenInstitute/bmtk#405 · 2 comments · Opened Feb 21, 2025
Ability to assign cells to different processes using their gids Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

AllenInstitute/bmtk#384 · 2 comments · Opened Sep 10, 2024
Cannot simulate PointNet network with custom set_syn_weight function Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

AllenInstitute/bmtk#381 · Opened Aug 27, 2024
Cannot rebuild network for V1 models Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

AllenInstitute/bmtk#380 · 1 comment · Opened Aug 2, 2024
Cannot set glif_cond model parameters in PointNet Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

AllenInstitute/bmtk#376 · Opened Jun 27, 2024
Many examples won't work if config file is not specified in Python 3.9+ Open

Difficulty 3/5 1-2 days Newbie friendliness 48/100

AllenInstitute/bmtk#374 · 2 comments · Opened Jun 25, 2024
PointNet Synapse Dynamics params receptor type referring to proximal dendrite Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

AllenInstitute/bmtk#373 · Opened Jun 20, 2024
Assigning Individual cell model configuration file to each node of a population Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

AllenInstitute/bmtk#371 · Opened Jun 5, 2024
Confusing time stamps in TemporalFilter imshow function Open

Difficulty 3/5 1-2 days Newbie friendliness 38/100

AllenInstitute/bmtk#370 · Opened Jun 4, 2024
Refer to NEST models and NESTML Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

AllenInstitute/bmtk#363 · 6 comments · Opened Apr 29, 2024
Extracting synapses placement along depth axis Open

Difficulty 4/5 3-5 days Newbie friendliness 42/100

AllenInstitute/bmtk#344 · 2 comments · Opened Dec 22, 2023
The support of GPU Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

AllenInstitute/bmtk#343 · 2 comments · Opened Dec 18, 2023
Synapse location Open

Difficulty 3/5 1-2 days Newbie friendliness 30/100

AllenInstitute/bmtk#342 · Opened Dec 18, 2023
FilterNet: Changing the location of nondominant filter also changes the location of dominant filter in class "TwoSubfieldLinearCell" of "cellmodel.py" in bmtk Open

Difficulty 2/5 1-3 hours Newbie friendliness 45/100

AllenInstitute/bmtk#339 · 2 comments · Opened Nov 7, 2023
"TwoSubfieldLinearCell" saves the dominant_filter amplitude for nondominant_filter unit Open

Difficulty 1/5 Under an hour Newbie friendliness 65/100

AllenInstitute/bmtk#337 · Opened Nov 2, 2023
Merge tutorials (workshop and regular) Open

AllenInstitute/bmtk#336 · 1 assignee · Opened Nov 1, 2023
The cosine bump basis functions used in FilterNet seem to be different from the formula in Pillow et.al. J Neurosci 2005 Open

Difficulty 4/5 3-5 days Newbie friendliness 38/100

AllenInstitute/bmtk#334 · Opened Nov 1, 2023
Using bionet iclamp with MPI fails due to accessing cells not on rank Open

Difficulty 2/5 1-3 hours Newbie friendliness 45/100

AllenInstitute/bmtk#331 · Opened Oct 4, 2023
tutorial 5 os.geteuid nest root access error Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

AllenInstitute/bmtk#329 · Opened Sep 23, 2023
tutorial 1 step 2 compiling error Open

Difficulty 4/5 3-5 days Newbie friendliness 20/100

AllenInstitute/bmtk#328 · Opened Sep 23, 2023
Problem importing bmtk.analyzer.compartment Open

Difficulty 4/5 3-5 days Newbie friendliness 30/100

AllenInstitute/bmtk#327 · 2 comments · Opened Sep 20, 2023
Installing from source via pip Open

Difficulty 1/5 1-3 hours Newbie friendliness 68/100

AllenInstitute/bmtk#326 · Opened Sep 20, 2023
Load from h5. Open

Difficulty 2/5 1-3 hours Newbie friendliness 55/100

AllenInstitute/bmtk#324 · Opened Sep 17, 2023
Likely invalid example in the docs Open

Difficulty 1/5 Under an hour Newbie friendliness 50/100

AllenInstitute/bmtk#323 · Opened Sep 16, 2023
Contact link broken Open

Difficulty 2/5 1-3 hours Newbie friendliness 50/100

AllenInstitute/bmtk#322 · Opened Sep 16, 2023
ECP module not recording consistently Open

Difficulty 4/5 3-5 days Newbie friendliness 30/100

AllenInstitute/bmtk#321 · Opened Sep 7, 2023
report for computing population-resolved ecp and average membrane potentials Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

AllenInstitute/bmtk#312 · 4 comments · Opened Jun 30, 2023
Core neuron support? Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

AllenInstitute/bmtk#282 · 2 comments · Opened Jan 21, 2023
Tutorial 1 step 3 Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

AllenInstitute/bmtk#208 · 2 comments · Opened Mar 28, 2022
Example CSV for Custom Input Waveform Open

Difficulty 3/5 1-2 days Newbie friendliness 28/100

AllenInstitute/bmtk#207 · Opened Mar 17, 2022
05_pointnet_modeling.ipynb gives error "Exception: Could not find any network files. Unable to build network." Open

Difficulty 3/5 1-2 days Newbie friendliness 28/100

AllenInstitute/bmtk#184 · 13 comments · Opened Sep 18, 2021
Spike input from real neurons Open

Difficulty 2/5 1-3 hours Newbie friendliness 35/100

AllenInstitute/bmtk#183 · 1 comment · Opened Sep 18, 2021
Formatting error in docs Open

Difficulty 1/5 Under an hour Newbie friendliness 55/100

AllenInstitute/bmtk#177 · Opened Jul 21, 2021
Support for using NEURON's multisplit() ? Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

AllenInstitute/bmtk#173 · Opened May 18, 2021
VirtualCell set_stim fails when spikes is a list Open

Difficulty 2/5 1-3 hours Newbie friendliness 45/100

AllenInstitute/bmtk#163 · Opened Mar 10, 2021
build_env_bionet fails when config_file is not explicitly provided Open

Difficulty 2/5 1-3 hours Newbie friendliness 48/100

AllenInstitute/bmtk#162 · 1 comment · 2 reactions · Opened Feb 17, 2021
Tutorial 05 fails on Analysis (no spikes?) Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

AllenInstitute/bmtk#160 · 1 comment · Opened Jan 23, 2021
The tests and pycache are packaged Open

Difficulty 3/5 1-2 days Newbie friendliness 42/100

AllenInstitute/bmtk#153 · Opened Dec 17, 2020
Single-compartment Bionet cells Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

AllenInstitute/bmtk#152 · Opened Dec 4, 2020

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