imodpasteur

lutorpy

Use torch in python for deep learning.

ANNA-PALM

Accelerating Single Molecule Localization Microscopy with Deep Learning

ZOLA-3D

Zernike Optimized Localization Algorithm for 3D single molecule localizations

Brightfield-Drift-Correction-3D

Acquire bright field images along with the super resolution data and use it to track drift in 3D with nanometer precision!

CompressedSensingMicroscopy3D

Reconstruction notebooks for the paper "Simple 3D compressed sensing scheme for faster and less phototoxic fluorescence microscopy imaging"

pySPIRALTAP

Sparse Poisson Intensity Reconstruction ALgorithms

keras

Deep Learning library for Python. Convnets, recurrent neural networks, and more. Runs on Theano and TensorFlow.

Anet-ImageJ

An ImageJ/FIJI plugin for running Anet, for processing images with ANNA-PALM and other models in ImageJ/FIJI.

smlm-file-format

A portable and extendable file format for storing and sharing localization microscopy data.

ShareLoc.XYZ

A platform for sharing localization microscopy data.

ArduinoCompressedSensing

A compressed sensing plugin for MicroManager to perform compressed sensing acquisitions

mnist-deep-learning-tutorial

shareloc-collection

RDF Collection for ShareLoc.XYZ

LoopExtrusion

A tool to simulate loop extrusion in chromatin

QuickPALM

A 3D real-time PALM/STORM image processing plugin for ImageJ

RNNtrajAnalysis

sagenb

Sage Notebook for super-resolution imaging automation

VoroQuant

A 3D-voronoi-based python program to quantify SMLM data

DeepCell

shareloc-utils

Utility tools for ShareLoc.XYZ

smlm-viewer

TaggedSpot2CSV

Convert Tagged Spot File (.tsf from MicroManager) to Comma Separated Values file(.csv for thunderSTORM)

thunderstorm

ThunderSTORM: a comprehensive ImageJ plugin for SMLM data analysis and super-resolution imaging