Nicolas Chiaruttini's repositories
ABBA-Python
How to use Aligning Big Brains and Atlases with Python
Controller42
Matlab code for the control, recording and synchronization of several devices (pumps, camera, live trackers, micromanipulators).
ABBA-QuPath-utility-scripts
A collection of scripts for ABBA, Fiji and QuPath.
ijp-operetta-importer
New & Improved PerkinElmer Operetta Importer Script using BioFormats!
bigdataviewer-core
ImgLib2-based viewer for registered SPIM stacks and more
bigdataviewer-projectors
Tests of various projectors for BigDataViewer
BigStitcher
ImgLib2/BDV implementation of Stitching for large datasets
bioformats
Bio-Formats is a Java library for reading and writing data in life sciences image file formats. It is developed by the Open Microscopy Environment. Bio-Formats is released under the GNU General Public License (GPL); commercial licenses are available from Glencoe Software.
DeepSlice
A python package which aligns histology to the Allen Brain Atlas and Waxholm rat atlas using deep learning.
ijp-imagetoatlas
Atlas display and registration tools
ijp-imglib2bdvdemo-ij2
Various demos using imglib2 and bdv
imagej.github.io
GitHub Pages for ImageJ
imageJ_play_Claire
Repository to play with opening OMERO images from imageJ
jaunch
Jaunch: Launch Java ππ€πͺπ§ Way! π
jimzMLParser
Java imzML (mass spectrometry imaging) and mzML (mass spectrometry) parser
multiview-reconstruction
Software for the reconstruction of multi-view microscopic acquisitions like Selective Plane Illumination Microscopy (SPIM) Data
ome-common-java
Java library providing common functionality for all OME Java components
pom-scijava
Friendly base POM for all SciJava-based software
scijava-common
A plugin framework and application container with built-in extensibility mechanism :electric_plug:
scijava-python-command
A repository that facilitates the use of Scijava commands in Python
simple-omero-client
Maven project to easily connect to OMERO.
spacetx-writer
Convert supported filesets to the SpaceTx format