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caffe

Caffe: a fast open framework for deep learning.

caiman

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

calanalyzer

The downstream analysis toolbox of processed calcium imaging data. Former 'analysis' and 'visualization' folders in the repository 'Image_toolbox'. A GUI module is included.

cudadecon

everglades

This is the control program for the microscope Everglades in Huang lab.

fiji_tools

A collection of handy FIJI macros for image processing.

filter_wheel

A filter wheel controller system based on Arduino and Parallax servos.

fishlines

This is a toy program to operate the database of zebrafish lines that I am maintaining.

github_io

Silly cat's silly lab.

image_toolbox

This is my toolbox for image processing and downstream analysis of calcium imaging data.

keras

Deep Learning library for Python. Runs on TensorFlow, Theano, or CNTK.

libtim-py

Personal utility library

optics

A toolbox for optical simulation. The implementation of phase-retrieval algorithm is included.

phase_retrieval

An implementation of the phase-retrieval algorithm for pupil function calculation.

pycpd

Pure Numpy Implementation of the Coherent Point Drift Algorithm

small-devices

A collection of Python-based control modules for USB-interfaced small devices.

ultrasound-nerve-segmentation

Deep Learning Tutorial for Kaggle Ultrasound Nerve Segmentation competition, using Keras

z-brain

Z-Brain Viewer and Analysis Scripts for MAP-Mapping