StephanPreibisch

FourierConvolutionCUDALib

Implementation of 3d non-separable convolution using CUDA & FFT Convolution

SeparableConvolutionCUDALib

Implementation of 1/2/3d separable convolution using CUDA

imglib2-introduction

Some simple examples of imglib2 code, sample images, and presentation

AdinaPointDistances

RadialSymmetryLocalization

Implementation of Radial Symmetry Localization for Java

bigdataviewer-core

ImgLib2-based viewer for registered SPIM stacks

blockmatching

flamingo-tools

lightsheet-moser

flintstone

Ingition for your spark jobs

funwithtypes

trying to find a general way to define bi-directional type hierarchies

imglib2

A generic next-generation Java library for image processing

Kasper_synapse_segmentation

MFM-Align

Software for the alignement of multi-focal microscopy data (Descriptor-based in XY, Information Entropy based in Z)

mpicbg

Fiji module for image transformation and related algorithms

n5-ij

ImageJ convenience layer for N5

n5-utils

simple standalone BigDataViewer for multiple N5 (or HDF5) datasets

ossi-website

Website showcasing Janelia Open Science Software Intiative (OSSI) supported software projects and other software developed at Janelia.

pom-scijava

Friendly base POM for all SciJava-based software

smfish

SPIM_Registration

Software for the reconstruction of multi-view microscopic acquisitions like Selective Plane Illumination Microscopy (SPIM) Data

SPIM_Registration_JNI

Helper class to access SPIM_Registration functionality from c++ via JNI

stitching-spark

Reconstruct big images from overlapping tiled images on a Spark cluster.

TestSeparableConvolutionCUDA

First steps in CUDA to extend the example code to 3d

volume-renderer

Primitive ImgLib2 volume renderer

z-spacing

Estimate the correct positions of sections of three dimensional image data.