pmascalchi

luigi

Luigi is a Python module that helps you build complex pipelines of batch jobs. It handles dependency resolution, workflow management, visualization etc. It also comes with Hadoop support built in.

SimpleITK-Notebooks

Jupyter notebooks for learning how to use SimpleITK

magicgui

build GUIs from type annotations

pyclesperanto_prototype

GPU-accelerated bio-image analysis focusing on 3D+t microscopy image data

aicsimageio

Image Reading, Metadata Conversion, and Image Writing for Microscopy Images in Python

github-downloads-count

A script to get downloads count of your GitHub repositories

gputools

GPU accelerated image/volume processing in Python

picasso

A collection of tools for painting super-resolution images

BigStitcher

ImgLib2/BDV implementation of Stitching for large datasets

NanoJ-Fluidics

Manual, source-code and binaries for the NanoJ-Fluidics project

unet_segmentation_metrics

Metrics for determining segmentation accuracy

mesoSPIM-control

Image acquisition software for mesoSPIM light-sheet microscopes.

PythonForAivia

Python scripts library for Aivia. Ask your questions on the forum >>

Interactive-H-Watershed

preview watershed results on the fly as you update segmentation parameters

FastFUCCI-tracking

Set of macros to track individual FastFUCCI cells with Trackmate plugin for ImageJ/Fiji

localize-psf

Code for localizing diffraction limited fluorescent objects and fitting the results to various different point-spread function (PSF) models.

cvapipe_figure_notebooks

Notebooks for reproducing figures in the cell variance paper

mica_omero

IJ_Robot

This plugin calls the Robot Java class. The purpose of the plugin is to allow the macro language to control other programs via clicking and key presses.

BioImageAnalysisToolbox

macro_manager

Macro Manager is a plugin for ImageJ to manage your own macros and allow simple execution and editing.