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annotation_plugin

bigdataviewer-core-movie

ImgLib2-based viewer for registered SPIM stacks and more

bigstitcher

ImgLib2/BDV implementation of Stitching for large datasets

bigstitcher-benchmark

Code for assessing the quality of BigStitcher registration on simulated data

bigstitcher-mm

BigStitcher MicroManager interface

bigstitcher-paper

text and ressources for the BigStitcher publication

bigstitcher-singularity

Singularity container description for BigStitcher

blob_tracker4d

4D Blob tracker @V Kapoor

blobdetection

Track blobs

calendarsync

A repository for syncing an Exchange calendar to a google calendar

cell-counting-zebrafish

cell_classification

Python script for the classification of cells

dl-cell-counting

Repo contains the implementation of the count-ception CNN (Tensorflow + Keras)

dl-club

Contains tutorials and projects related to the deep learning club at MDC

dl-keras-data-generation

Contains functions (in java) that are missing in python or too time-consuming

dl-u-net

implementation of the u-net (Keras + tensorflow)

dnacombing

Code for analyzing the quality of probes for detection of genomic loci

drosophila_single_cell_brain_circadian

drosophilawing

Analysis of Adult Drosophila Wing Images

embryo-lineages

Tracking of the C. elegans embryo development using MaMuT

embryomatching

Find corresponding embryos imaged with confocal/epifluoresence

entra_transformation

Entropy conserving transformation tool @V Kapoor

frc-qe

Fourier Ring Correlation-based estimation of clearing quality

functionfit

Extension of Saalfelds mpi-cbg package for function fits

hough

Hough Transform for Microtubules and Spindles

image_rf

Image analysis random forest classifier

imagejmacro

Set of macro for ImageJ

imglib2-ij

Translation between ImgLib & ImageJ data structures (both 1.x and 2)

imglib2testenvironment

To play around with ImgLib2

mserline

Interfaced structure for detecting continuous and piecewise continuous lines using MSER and Hough Transform with LM and WCoG optimizers.