node

Represents a node in a network. Each node has a unique index, its position in the network’s list of nodes.

class pyphi.node.Node(tpm, cm, index, state, node_labels)

A node in a subsystem.

Parameters:
  • tpm (np.ndarray) – The TPM of the subsystem.
  • cm (np.ndarray) – The CM of the subsystem.
  • index (int) – The node’s index in the network.
  • state (int) – The state of this node.
  • node_labels (NodeLabels) – Labels for these nodes.
tpm

np.ndarray – The node TPM is an array with shape (2,)*(n + 1), where n is the size of the Network. The first n dimensions correspond to each node in the system. Dimensions corresponding to nodes that provide input to this node are of size 2, while those that do not correspond to inputs are of size 1, so that the TPM has \(2^m \times 2\) elements where \(m\) is the number of inputs. The last dimension corresponds to the state of the node in the next timestep, so that node.tpm[..., 0] gives probabilities that the node will be ‘OFF’ and node.tpm[..., 1] gives probabilities that the node will be ‘ON’.

tpm_off

The TPM of this node containing only the ‘OFF’ probabilities.

tpm_on

The TPM of this node containing only the ‘ON’ probabilities.

inputs

The set of nodes with connections to this node.

outputs

The set of nodes this node has connections to.

label

The textual label for this node.

__eq__(other)

Return whether this node equals the other object.

Two nodes are equal if they belong to the same subsystem and have the same index (their TPMs must be the same in that case, so this method doesn’t need to check TPM equality).

Labels are for display only, so two equal nodes may have different labels.

to_json()

Return a JSON-serializable representation.

pyphi.node.generate_nodes(tpm, cm, network_state, indices, node_labels=None)

Generate Node objects for a subsystem.

Parameters:
  • tpm (np.ndarray) – The system’s TPM
  • cm (np.ndarray) – The corresponding CM.
  • network_state (tuple) – The state of the network.
  • indices (tuple[int]) – Indices to generate nodes for.
Keyword Arguments:
 

node_labels (NodeLabels) – Textual labels for each node.

Returns:

The nodes of the system.

Return type:

tuple[Node]

pyphi.node.expand_node_tpm(tpm)

Broadcast a node TPM over the full network.

This is different from broadcasting the TPM of a full system since the last dimension (containing the state of the node) contains only the probability of this node being on, rather than the probabilities for each node.