eoscircuits.antcircuits package

Submodules

eoscircuits.antcircuits.circuit module

Antenna Circuit

This module supports:

1. Changing the affinity values of each of the odorant-receptor pairs characterizing the input of the Odorant Transduction Process. 2. Changing parameter values of the Biological Spike Generators (BSGs) associated with each OSN. 3. Changing the number of OSNs expressing the same Odorant Receptor (OR) type.

class eoscircuits.antcircuits.circuit.ANTCircuit(graph, config)[source]

Bases: eoscircuits.basecircuit.Circuit

Antenna Circuit

Parameters
Return type

None

config: eoscircuits.antcircuits.circuit.ANTConfig

Configuration of Circuit. Fully Specifies the Circuit

classmethod create_from_config(cfg)[source]

Create Instance from Config

Parameters

cfg – Config instance that specifies the configuration of the module

Returns

A new ANTCircuit instance

Return type

eoscircuits.antcircuits.circuit.ANTCircuit

classmethod create_graph(cfg)[source]

class method that creates an instance of networkx graph from configuration

Return type

networkx.classes.multidigraph.MultiDiGraph

extra_comps: List[NDComponent]

Extra Components to be aded to NeuroKernel at Run Time

get_node_ids(node_type, receptor=None)[source]
Parameters

  • node_type (ANTConfig.node_types) –

  • receptor (Union[str, Iterable[str]]) –

Return type

list

property inputs

Output OTP Nodes IDs and the Variables

property outputs

Output BSG Nodes IDs and the Variables

set_NO(NO, receptor=None, aff_noise_std=0.0)[source]

Change number of OSNs expressing each receptor type

Parameters

NO (Union[int, Iterable[int]]) –

Return type

None

set_affinities(value, receptors=None)[source]

Set Affinity values.

Note

Because binding rates are computed from affinities config.affs and dissociations rates config.drs, change affinities will have effect of changing binding rates but not dissociation rates.

Return type

None

set_bsg_params(key, value)[source]

Set parameter value of BSG nodes

Parameters

  • key (str) –

  • value (float) –

Return type

None

class eoscircuits.antcircuits.circuit.ANTConfig(NO, affs, receptors=None, resting=None, node_params=<factory>, osns=None)[source]

Bases: eoscircuits.basecircuit.Config

Configuration for Antenna Circuits

Parameters

  • NO (Iterable[Iterable[int]]) –

  • affs (Iterable[float]) –

  • receptors (Iterable[str]) –

  • resting (float) –

  • node_params (dict) –

  • osns (Iterable[Iterable[str]]) –

Return type

None

NO: Iterable[Iterable[int]]

Number of OSNs per Receptor Type

property NR

Number of Receptors

affs: Iterable[float]

Affinity Values

property brs

Binding Rates of the OTPs

property drs

Binding Rates of the OTPs

node_params: dict

Parameters for each neuron type

property node_types

List of Recognized Node Types

property osn_bsgs
property osn_otps
osns: Iterable[Iterable[str]] = None

Ids of OSNs for each channel

This is a list of list, where the outer list correspond to

receptors: Iterable[str] = None

Name of receptors of length NR

resting: float = None

Resting OSN Spike Rates [Hz]

set_affs(new_affs)[source]
set_or_assert(var, new_var, N)[source]

Set Variable or Check Dimensionality

If var to new_names if None and perform dimensionality checks

Parameters

  • var (Config.Attribute) – old variable value

  • new_var (Config.Attribute) – new variable value

  • N (numpy.ndarray) – dimensionality for the variable, could be multi-dimensional

Return type

Config.Attribute

property sigma

Noisy Connor Stevens model Noise Level

exception eoscircuits.antcircuits.circuit.ANTException[source]

Bases: eoscircuits.basecircuit.EOSCircuitException

Base Antenna Exception

eoscircuits.antcircuits.model module

NeuroDriver Models and Utilities

class eoscircuits.antcircuits.model.NoisyConnorStevens[source]

Bases: object

Noisy Connor-Stevens Neuron Model

F-I curve is controlled by sigma parameter

Notes

sigma value should be scaled by sqrt(dt) as sigma/sqrt(dt) where sigma is the standard deviation of the Brownian Motion

params = {'EK': -72.0, 'EL': -17.0, 'ENa': 55.0, 'Ea': -75.0, 'gK': 20.0, 'gL': 0.3, 'gNa': 120.0, 'ga': 47.7, 'hs': -12.0, 'ms': -5.3, 'ns': -4.3, 'refperiod': 1.0, 'sigma': 2.05}
states = {'a': 1.0, 'b': 1.0, 'h': 1.0, 'm': 0.0, 'n': 0.0, 'refactory': 0.0, 'v1': -60.0, 'v2': -60.0}
class eoscircuits.antcircuits.model.OTP[source]

Bases: object

Odorant Transduction Process

params = {'Imax': 150.159, 'a1': 45.0, 'a2': 199.574, 'a3': 2.539, 'b1': 0.8, 'b2': 51.887, 'b3': 0.9096, 'br': 1.0, 'c': 0.06546, 'dr': 10.0, 'gamma': 0.138, 'kappa': 9593.9, 'p': 1.0}
states = {'duh': 0.0, 'uh': 0.0, 'v': 0.0, 'x1': 0.0, 'x2': 0.0, 'x3': 0.0}

Module contents

Antenna Circuit

This module supports:

  1. Changing the affinity values of each of the odorant-receptor pairs characterizing the input of the Odorant Transduction Process.

  2. Changing parameter values of the Biological Spike Generators (BSGs) associated with each OSN.

  3. Changing the number of OSNs expressing the same Odorant Receptor (OR) type.