Help

About Online Help Supported Platforms Data Portal API Reference Atlas Viewer Brain Explorer Mouse Brain Developing Mouse Brain Human Brain Developing Human Brain Mouse Spinal Cord Glioblastoma Non-Human Primate Mouse Connectivity Cell Types
Aging, Dementia and TBI Allen Brain Observatory

Versions Compared

Old Version 48

changes.mady.by.user Unknown User (davidf)

Saved on

compared with

New Version 49

changes.mady.by.user Unknown User (davidf)

Saved on

Key

  • This line was added.
  • This line was removed.
  • Formatting was changed.

...

Download electrophysiology data in Neurodata Without Borders (NWB) format
Download computed electrophysiology features
Download images of cell morphology images
Download morphological reconstructions in SWC format
Image Modified Download computed morphology features
Image Modified Download neuronal models trained on this data set

...

All models in the Allen Cell Types Database are available for download and local execution via the Allen Software Development Kit (SDK).  The biophysical models require NEURON to be run, which the SDK helps to configure.  The GLIF simulation module comes as part of the Allen SDK. Please visit the Allen SDK page for more details.

Examples:

Anchor
download_models
download_models

  • Find all cells with perisomatic biophysical models

...

  • Find all cells with GLIF models
    No Format
    
http://api.brain-map.org/api/v2/data/query.xml?
criteria=model::Specimen,rma::criteria,neuronal_models(neuronal_model_template[description$il'*GLIF*'])
  • Download all GLIF models for Scnn1a-Tg3 cell 469803127
    No Format
    
http://api.brain-map.org/api/v2/data/query.xml?
criteria=model::Specimen,rma::criteria,[id$eq469803127]
,rma::include,neuronal_models(neuronal_model_template[name$il'*LIF*'])
  • Download the files necessary to run simple LIF model 472423251
    No Format
    
 http://api.brain-map.org/neuronal_model/download/472423251
  • Allen SDK documentation for how to run simple LIF model 472423251
    No Format
    
 http://sdk.brain-map.org/glif_models.html#downloading-glif-models
  • Link to the electrophysiology page for Scnn1a-Tg3 cell 469803127
    No Format
    
 http://celltypes.brain-map.org/mouse/experiment/electrophysiology/469803127