AllenInstitute/bmtk

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• How to download AI CTDB models with AllenSDK

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

  AllenInstitute/bmtk#468 · Opened Aug 5, 2026

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• tau_syn_basis and weight coefficients for TF synapses

  May be free again @shixnya claimed this 131 days ago, and no pull request is open. Open

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  AllenInstitute/bmtk#463 · 1 assignee · Opened Jun 24, 2026

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• Independent reproducibility/transparency evaluation of BMTK — feedback welcome

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

  AllenInstitute/bmtk#457 · Opened Jun 14, 2026

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• Jupyter notebook tutorial for the V1 model

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

  AllenInstitute/bmtk#448 · Opened Apr 23, 2026

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• Allow different parameters for different nodes in extracellular stimulation in BioNet

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

  AllenInstitute/bmtk#447 · Opened Apr 22, 2026

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• Consolidate tutorials

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

  AllenInstitute/bmtk#435 · Opened Aug 18, 2025

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• Feature: Implementation of Bazhenov Sleep Transition Model

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  bug enhancement

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

  AllenInstitute/bmtk#434 · 1 comment · Opened Jul 30, 2025

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• Unable to provide fast (eg dt=0.1) timestamps for amplitude injection

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  AllenInstitute/bmtk#429 · 2 comments · Opened Jun 7, 2025

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• Complete beginner tutorial

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

  AllenInstitute/bmtk#423 · Opened Mar 19, 2025

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• How to reference gap junctions in the configuration file

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

  AllenInstitute/bmtk#415 · Opened Mar 5, 2025

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• Mismatch between stimulation node and node id with current_clamp

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  AllenInstitute/bmtk#405 · 2 comments · Opened Feb 21, 2025

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• Ability to assign cells to different processes using their gids

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

  AllenInstitute/bmtk#384 · 2 comments · Opened Sep 10, 2024

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• Cannot simulate PointNet network with custom set_syn_weight function

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

  AllenInstitute/bmtk#381 · Opened Aug 27, 2024

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• Cannot rebuild network for V1 models

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

  AllenInstitute/bmtk#380 · 1 comment · Opened Aug 2, 2024

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• Cannot set glif_cond model parameters in PointNet

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

  AllenInstitute/bmtk#376 · Opened Jun 27, 2024

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• Many examples won't work if config file is not specified in Python 3.9+

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

  AllenInstitute/bmtk#374 · 2 comments · Opened Jun 25, 2024

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• PointNet Synapse Dynamics params receptor type referring to proximal dendrite

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

  AllenInstitute/bmtk#373 · Opened Jun 20, 2024

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• Assigning Individual cell model configuration file to each node of a population

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

  AllenInstitute/bmtk#371 · Opened Jun 5, 2024

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• Confusing time stamps in TemporalFilter imshow function

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

  AllenInstitute/bmtk#370 · Opened Jun 4, 2024

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• Refer to NEST models and NESTML

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

  AllenInstitute/bmtk#363 · 6 comments · Opened Apr 29, 2024

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• Extracting synapses placement along depth axis

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

  AllenInstitute/bmtk#344 · 2 comments · Opened Dec 22, 2023

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• The support of GPU

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

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

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• Synapse location

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

  AllenInstitute/bmtk#342 · Opened Dec 18, 2023

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• FilterNet: Changing the location of nondominant filter also changes the location of dominant filter in class "TwoSubfieldLinearCell" of "cellmodel.py" in bmtk

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

  AllenInstitute/bmtk#339 · 2 comments · Opened Nov 7, 2023

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• "TwoSubfieldLinearCell" saves the dominant_filter amplitude for nondominant_filter unit

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

  AllenInstitute/bmtk#337 · Opened Nov 2, 2023

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• Merge tutorials (workshop and regular)

  May be free again @LHGreen claimed this 803 days ago, and no pull request is open. Open

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  AllenInstitute/bmtk#336 · 1 assignee · Opened Nov 1, 2023

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• The cosine bump basis functions used in FilterNet seem to be different from the formula in Pillow et.al. J Neurosci 2005

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

  AllenInstitute/bmtk#334 · Opened Nov 1, 2023

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• Using bionet iclamp with MPI fails due to accessing cells not on rank

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

  AllenInstitute/bmtk#331 · Opened Oct 4, 2023

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• tutorial 5 os.geteuid nest root access error

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

  AllenInstitute/bmtk#329 · Opened Sep 23, 2023

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• tutorial 1 step 2 compiling error

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

  AllenInstitute/bmtk#328 · Opened Sep 23, 2023

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• Problem importing bmtk.analyzer.compartment

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

  AllenInstitute/bmtk#327 · 2 comments · Opened Sep 20, 2023

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• Installing from source via pip

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

  AllenInstitute/bmtk#326 · Opened Sep 20, 2023

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• Load from h5.

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

  AllenInstitute/bmtk#324 · Opened Sep 17, 2023

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• Likely invalid example in the docs

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  AllenInstitute/bmtk#323 · Opened Sep 16, 2023

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• Contact link broken

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

  AllenInstitute/bmtk#322 · Opened Sep 16, 2023

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• ECP module not recording consistently

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

  AllenInstitute/bmtk#321 · Opened Sep 7, 2023

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• report for computing population-resolved ecp and average membrane potentials

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

  AllenInstitute/bmtk#312 · 4 comments · Opened Jun 30, 2023

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• Core neuron support?

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

  AllenInstitute/bmtk#282 · 2 comments · Opened Jan 21, 2023

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• Tutorial 1 step 3

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

  AllenInstitute/bmtk#208 · 2 comments · Opened Mar 28, 2022

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• Example CSV for Custom Input Waveform

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

  AllenInstitute/bmtk#207 · Opened Mar 17, 2022

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• 05_pointnet_modeling.ipynb gives error "Exception: Could not find any network files. Unable to build network."

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

  AllenInstitute/bmtk#184 · 13 comments · Opened Sep 18, 2021

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• Spike input from real neurons

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

  AllenInstitute/bmtk#183 · 1 comment · Opened Sep 18, 2021

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• Formatting error in docs

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

  AllenInstitute/bmtk#177 · Opened Jul 21, 2021

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• Support for using NEURON's multisplit() ?

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

  AllenInstitute/bmtk#173 · Opened May 18, 2021

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• VirtualCell set_stim fails when spikes is a list

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

  AllenInstitute/bmtk#163 · Opened Mar 10, 2021

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• build_env_bionet fails when config_file is not explicitly provided

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

  AllenInstitute/bmtk#162 · 1 comment · 2 reactions · Opened Feb 17, 2021

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• Tutorial 05 fails on Analysis (no spikes?)

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

  AllenInstitute/bmtk#160 · 1 comment · Opened Jan 23, 2021

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• The tests and pycache are packaged

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

  AllenInstitute/bmtk#153 · Opened Dec 17, 2020

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• Single-compartment Bionet cells

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

  AllenInstitute/bmtk#152 · Opened Dec 4, 2020

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• Getting wrong resting potential in cell models from Allen Brain Atlas

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

  AllenInstitute/bmtk#146 · Opened Oct 7, 2020

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