core Package

cell Module

class Cell(morphology=None, area=None, segmenter=None, initial_voltage=None, cell_tags=None, cell_type=None, **kwargs)[source]

Bases: morphforge.simulation.base.base_classes.NamedSimulationObject

class Recordables[source]

Bases: object

MembraneVoltage = 'Voltage'

Cell.__init__(morphology=None, area=None, segmenter=None, initial_voltage=None, cell_tags=None, cell_type=None, **kwargs)[source]

Cell.apply_channel(*args, **kwargs)[source]

Cell.cell_type

Cell.cell_type_str

Cell.electrical_connections

Cell.get_biophysics()[source]

Cell.get_location(idtag, sectionpos=0.5)[source]

Cell.get_region(region_name)[source]

Cell.get_regions()[source]

Cell.get_segmenter()[source]

Cell.index_in_pop

Cell.is_single_compartment

Cell.postsynaptic_connections

Cell.presynaptic_connections

Cell.segmenter

Cell.set_passive(*args, **kwargs)[source]

Cell.soma

celllocation Module

class CellLocation(cell, morphlocation=None, section=None, sectionpos=None)[source]

Bases: object

__init__(cell, morphlocation=None, section=None, sectionpos=None)[source]

cell

get_3d_position()[source]

get_cell()[source]

get_location_description_str()[source]

section

sectionpos

recordable Module

class Recordable(description=None, user_tags=None, **kwargs)[source]

Bases: morphforge.simulation.base.base_classes.NamedSimulationObject

__init__(description=None, user_tags=None, **kwargs)[source]

_mh_decription

get_description()[source]

get_std_tags()[source]

get_tags()[source]

get_unit()[source]

simulation Module

class Simulation(name, environment, **kwargs)[source]

Bases: object

__init__(name, environment, **kwargs)[source]

add_cell(cell)[source]

add_cell_backend_specific(cell)[source]

add_currentclamp(cc)[source]

add_currentclamp_backend_specific(vc)[source]

add_gapjunction(gj)[source]

add_gapjunction_backend_specific(syn)[source]

add_recordable(recordable)[source]

add_recordable_backend_specific(recordable)[source]

add_synapse(syn)[source]

add_synapse_backend_specific(syn)[source]

add_voltageclamp(vc)[source]

add_voltageclamp_backend_specific(vc)[source]

are_all_cells_in_pops

cells

create_cell(**kwargs)[source]

create_currentclamp(**kwargs)[source]

create_gapjunction(**kwargs)[source]

create_synapse(trigger, postsynaptic_mech, **kwargs)[source]

create_voltageclamp(**kwargs)[source]

current_clamps

do_result_post_processing()[source]

gapjunctions

get_all_channels()[source]

get_cell(cellname=None)[source]

Either return a cell by name if there is more than one cell, otherwise the single cell

neuron_populations

objectnames

objects

postsynaptic_templates

record(recordable_src=None, **kwargs)[source]

recordables

recordall(membrane_mech, **kwargs)[source]

run(**kwargs)[source]

synapse_populations

synapses

voltage_clamps

simulationenvironment Module

class SimulationEnvironment[source]

Bases: object

Cell(**kwargs)[source]

Channel(**kwargs)[source]

CurrentClamp(**kwargs)[source]

GapJunction(**kwargs)[source]

Simulation(**kwargs)[source]

SimulationSettings(**kwargs)[source]

Synapse(**kwargs)[source]

VoltageClamp(**kwargs)[source]

__init__()[source]