Software for computational neuroscience

Upstream packages

The following tools are among the software currently tested in NeuroFedora and can be installed directly from upstream forges (e.g. PyPi):

Software Summary pip (PyPi) Notes

Software	Summary	pip (PyPi)	Notes
bluepyopt	Blue Brain Python Optimisation Library (bluepyopt).	`bluepyopt`
lfpy	A module for modeling extracellular potentials of multicompartment neuron models built on NEURON.	`lfpy`
libneuroml	A Python library for working with NeuroML descriptions of neuronal models.	`libneuroml`
nest-neat		`nest-neat`	Does not currently install on Python 3.13. https://github.com/nest/NEAT/issues/183
netpyne	A Python package to develop, simulate and analyse biological neuronal networks in NEURON.	`netpyne`
neurom	NeuroM: a light-weight neuron morphology analysis package.	`neurom`
NEURON	Empirically-based simulator for modeling neurons and networks of neurons.	`NEURON`
neurotune	A Python library for optimising neuronal models.	`neurotune`
pylems	A Python library for working with the Low Entropy Model Specification language (LEMS).	`pylems`
pyneuroml	Python utilities for NeuroML.	`pyneuroml`
pynn	A Python package for simulator-independent specification of neuronal network models.	`pynn`
sciunit	A test-driven framework for formally validating scientific models against data.	`sciunit`