bghannad

fastai

The fastai deep learning library

DeOldify

A Deep Learning based project for colorizing and restoring old images (and video!)

PyTorch-GAN

PyTorch implementations of Generative Adversarial Networks.

conv_arithmetic

A technical report on convolution arithmetic in the context of deep learning

courses

fast.ai Courses

DeepLabCut

Official implementation of DeepLabCut: Markerless pose estimation of user-defined features with deep learning for all animals incl. humans

neon

Intel® Nervana™ reference deep learning framework committed to best performance on all hardware

course-content

NMA Computational Neuroscience course

dask-tutorial

Dask tutorial

fastprogress

Simple and flexible progress bar for Jupyter Notebook and console

course-content-dl

NMA deep learning course

CaImAn

Computational toolbox for large scale Calcium Imaging Analysis, including movie handling, motion correction, source extraction, spike deconvolution and result visualization.

pypylon

The official python wrapper for the pylon Camera Software Suite

ffn

Flood-Filling Networks for instance segmentation in 3d volumes.

FishExplorer

interactive analysis of calcium imaging data from larval zebrafish

cloud-volume

Read and write Neuroglancer datasets programmatically.

Suite2P

Tools for processing 2P recordings

cdeep3m

Please go to https://github.com/CRBS/cdeep3m2 for most recent version

igneous

Scalable Neuroglancer compatible Downsampling, Meshing, Skeletonizing, Contrast Normalization, Transfers and more.

ELEKTRONN

A highly configurable toolkit for training 3D/2D CNNs and general Neural Networks (superceded by https://github.com/ELEKTRONN/elektronn3)

SyConn

Toolkit for the generation and analysis of volume eletron microscopy based synaptic connectomes of brain tissue.

Computational-Neuroscience

fpzip

Cython bindings for fpzip, a floating point image compression algorithm.

DeepVess

PyChunkedGraph

Data backend for fast proofreading of cell segmentations in connectomics datasets

emdrp

volumetric reconstruction of 3D cellular-resolution imaging data

compressedseg

compressed_segmentation for Neuroglancer volumes. This is the PyPI package fork.

compressedseg

FaceMapOriginal

original FaceMap code which writes a binary file of movie before processing (good for compressed movies, otherwise slow).

suite2p

cell detection in calcium imaging recordings