MicheleBortol

zeroc-ice-py-linux-x86_64

Builds ZeroC Ice Python manylinux_2_28 wheel packages for Linux x86_64.

omero_fileserver-import

Script to import images from fileserver mounted on an OMERO server

omero-HCS_notebooks

Utility notebook to interact with HCS data on OMERO

W-IDM_OmeroImporterExcelHelperPy

This repository contains Python software that was created to explore file system directories and automatically collect the names of image data files to be annotated with experimental and sample preparation metadata and imported into OMERO.

W-IDM_OmeroImporterPy

This repository contains software that was developed to add metadata annotations to bioimage data before importing it into OMERO

ez_zarr

GIve easy, high-level access to ome-zarr fileset

zarr-python

An implementation of chunked, compressed, N-dimensional arrays for Python.

VIB_Hackathon_June_2024

Code repository for the VIB Hackathon June 2024 on spatial omics. More info: https://hackmd.io/@berombau/BJetSxw8T

ilastik

ilastik-shell, applets, and workflows to string them together.

ome-types

native Python dataclasses for the OME data model

omero-iviewer

An OMERO.web app allowing to view images

awesome-public-datasets

A topic-centric list of HQ open datasets.

ome-zarr-py

Implementation of next-generation file format (NGFF) specifications for storing bioimaging data in the cloud.

raw2ometiff

Raw format to OME-TIFF converter

fiji_omero_workflows

ImageJ/Fiji macros using OMERO

training

molkart

A pipeline for processing Molecular Cartography data from Resolve Bioscience (combinatorial FISH)

omero-web-zarr

Implementation of OME-Zarr API with an omero-web app

omero-arc

Library to export OMERO projects to ARC repositories

ARC-specification

cookiecutter-omero-webapp

Cookiecutter to create OMERO.web apps

bioformats2raw

Bio-Formats image file format to raw format converter

OMERO.openlink

An OMERO.web app for sharing data and prepare data for web download

FriendsDontLetFriends

Friends don't let friends make certain types of data visualization - What are they and why are they bad.

shared-private-multimodalVAE

PyTorch implementation for shared-private Multimodal Variational Autoencoders

awesome-compose

Awesome Docker Compose samples

napari-spacetx-explorer

A simple plugin for an interactive visualization of spatial omics data.

wsl-vpnkit

Provides network connectivity to WSL 2 when blocked by VPN

ldap-summary

Simple shellscripts to make interaction with LDAP/AD/ldapsearch easier

SIMPLI

SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.