Neuroscience Methods Python Packages

natmeeg

Library for processing and analyizing M/EEG data as recorded with naturalistic stimuli.

rastermap

a visualization method for neural data

cebra

Learnable latent embeddings for joint behavioral and neural analysis - Official implementation of CEBRA

asltk

The Arterial Spin Labeling (ASL) toolkit offer a general imaging processing api for ASL MRI techniques.

cubids

Curation of BIDS (CuBIDS): A sanity-preserving software package for processing BIDS datasets.

naplib

Tools and functions for neural data processing and analysis in python

neurolib

Easy whole-brain modeling for computational neuroscientists 🧠💻👩🏿‍🔬

brain-pred-toolbox

The Brain Predictability toolbox (BPt), is a python based Machine Learning library designed primarily for tabular and neuroimaging specific neuroimaging data but can easily be generalized further.

hrfunc

HRfunc is a python preprocessing and modeling tool for estimating neural activity from hemoglobin concentration through deconvolving hemodynamic response functions and neural activity from fNIRS signals. Toeplitz deconvolution with Tikhonov regularization is employed for HRF and neural activity estimation.

derotation

Derotate images acquired via multiphoton calcium imaging

miniml-detect

A deep learning framework for synaptic event detection

axon-synthesis

A package to synthesize artificial axons

stiminterp

Remove photostimulation artefacts from images acquired via multiphoton calcium imaging

pygpso

Gaussian-Processes Surrogate Optimisation in python

spikelab

A suite of computational neuroscience analyses powered by agents

photon-mosaic

Automated and reproducible analysis of multiphoton imaging datasets

hnccorr

HNCcorr algorithm for neuron identification in calcium imaging datasets.

espresso-neuro

Electrophysiology Suite for Preprocessing, Recording, Event detection, and Spectral & Source-space Operations (espresso)

photon-mosaic-pipeline

Automated and reproducible analysis of multiphoton imaging datasets

scikit-neuromsi

A generalized framework for multisensory integration modeling

cubids-bond-fork

Curation of BIDS (CuBIDS): A sanity-preserving software package for processing BIDS datasets.

pynamicgain

Creating Dynamic Gain inputs for Python-based patch clamp setups.

braph

Brain Analysis using Graph Theory

ncmcmvis

This is a toolbox to analyze and interpret whole brain imaging data. It attempts to implement the NC-MCM framework in an easy access Python package. It was created in the process of a MasterThesis.