Note: the NeuroMLlite specification is still in development! Subject to change...
A Network containing multiple Population's, connected by Projection's and receiving Input's
| notes | str | |
| id | str | Unique identifier for the Network |
| parameters | Any | Dictionary of global parameters for the network |
| version | str | Information on verson of NeuroMLlite |
| seed | int | Seed for random number generator used when building network |
| temperature | float | Temperature at which to run network (float in deg C) |
| network_reader | NetworkReader | A class which can read in a network (e.g. from a structured format) |
| cells | Cell | The Cells which can be present in Populations |
| synapses | Synapse | The Synapse definitions which are used in Projections |
| input_sources | InputSource | The InputSource definitions which define the types of stimulus which can be applied in Inputs |
| regions | RectangularRegion | The Regions in which Populations get placed. |
| populations | Population | The Populations of Cells making up this network ... |
| projections | Projection | The Projections between Populations |
| inputs | Input | The inputs to apply to the elements of Populations |
A NetworkReader definition.
| notes | str | |
| type | str | The type of NetworkReader |
| parameters | Any | Dictionary of parameters for the NetworkReader |
A Cell definition.
| notes | str | |
| id | str | Unique identifier for this Cell |
| parameters | Any | Dictionary of parameters for the cell |
| neuroml2_source_file | str | File name of NeuroML2 file defining the cell |
| lems_source_file | str | File name of LEMS file defining the cell |
| neuroml2_cell | str | Name of standard NeuroML2 cell type |
| pynn_cell | str | Name of standard PyNN cell type |
| arbor_cell | str | Name of standard Arbor cell type |
| bindsnet_node | str | Name of standard BindsNET node |
A Synapse definition.
| notes | str | |
| id | str | Unique identifier for this Synapse |
| parameters | Any | Dictionary of parameters for the synapse |
| neuroml2_source_file | str | File name of NeuroML2 file defining the synapse |
| lems_source_file | str | File name of LEMS file defining the synapse |
| pynn_synapse_type | str | The pynn synapse type. Valid values are: "curr_exp", "curr_alpha", "cond_exp", "cond_alpha". |
| pynn_receptor_type | str | The pynn receptor type. Valid values are: "excitatory", "inhibitory". |
An InputSource definition.
| notes | str | |
| id | str | Unique identifier for this InputSource |
| parameters | Any | Dictionary of parameters for the InputSource |
| neuroml2_source_file | str | File name of NeuroML2 file defining the input source |
| neuroml2_input | str | Name of standard NeuroML2 input |
| lems_source_file | str | File name of LEMS file defining the input source |
| pynn_input | str | Name of PyNN input |
A RectangularRegion definition.
| notes | str | |
| id | str | Unique identifier for this rectangular region. |
| x | float | x coordinate of corner of region |
| y | float | y coordinate of corner of region |
| z | float | z coordinate of corner of region |
| width | float | width of the rectangular region |
| height | float | height of the rectangular region |
| depth | float | depth of the rectangular region |
A Population definition.
| notes | str | |
| id | str | Unique identifier for this Population |
| size | Union[EvaluableExpression, List, Dict, ndarray, int, float, str] | The size of the population. |
| component | str | The type of Cell to use in this population. |
| properties | Any | A dictionary of properties (metadata) for this population. |
| random_layout | RandomLayout | Layout in the random RectangularRegion. |
| relative_layout | RelativeLayout | Position relative to RectangularRegion. |
| single_location | SingleLocation | Explicit location of the one Cell in the population |
A RandomLayout definition.
| notes | str | |
| region | str | Region in which to place population |
A RelativeLayout definition.
| notes | str | |
| region | str | The Region relative to which population should be positioned. |
| x | float | x position relative to x coordinate of Region |
| y | float | y position relative to y coordinate of Region |
| z | float | z position relative to z coordinate of Region |
A SingleLocation definition.
| notes | str | |
| location | Location | Location of the single Cell. |
A Location definition.
| notes | str | |
| x | float | x coordinate of location |
| y | float | y coordinate of location |
| z | float | z coordinate of location |
A Projection definition.
| notes | str | |
| id | str | Unique identifier for this Projection |
| presynaptic | str | Presynaptic Population |
| postsynaptic | str | Postsynaptic Population |
| synapse | str | Which Synapse to use |
| pre_synapse | str | For continuous connections, what presynaptic component to use (default: silent analog synapse) |
| type | str | type of projection: projection (default; standard chemical, event triggered), electricalProjection (for gap junctions) or continuousProjection (for analogue/graded synapses) |
| delay | Union[EvaluableExpression, List, Dict, ndarray, int, float, str] | Delay to use (default: 0) |
| weight | Union[EvaluableExpression, List, Dict, ndarray, int, float, str] | Weight to use (default: 1) |
| random_connectivity | RandomConnectivity | Use random connectivity |
| convergent_connectivity | ConvergentConnectivity | Use convergent connectivity |
| one_to_one_connector | OneToOneConnector | Connect cell index i in pre pop to cell index i in post pop for all i |
A RandomConnectivity definition.
| notes | str | |
| probability | Union[EvaluableExpression, List, Dict, ndarray, int, float, str] | Random probability of connection. |
A ConvergentConnectivity definition.
| notes | str | |
| num_per_post | float | Number per post-synaptic neuron. |
A OneToOneConnector definition.
| notes | str |
An Input definition.
| notes | str | |
| id | str | Unique identifier for this Input |
| input_source | str | Type of input to use in population |
| population | str | Population to target |
| cell_ids | Union[EvaluableExpression, List, Dict, ndarray, int, float, str] | Specific ids of Cells to apply this input to (cannot be used with percentage |
| percentage | Union[EvaluableExpression, List, Dict, ndarray, int, float, str] | Percentage of Cells to apply input to |
| number_per_cell | Union[EvaluableExpression, List, Dict, ndarray, int, float, str] | Number of individual inputs per selected Cell (default: 1) |
| segment_ids | Union[EvaluableExpression, List, Dict, ndarray, int, float, str] | Which segments to target (default: [0]) |
| weight | Union[EvaluableExpression, List, Dict, ndarray, int, float, str] | Weight to use (default: 1) |