Repositories list

• python-imcflibs

  Public
  🐍 ☕ 🔩 🔧 🪛 A collection of commonly used Python helper functions.

  Python

  •

  GNU General Public License v3.0

  •3•0•2•0•Updated Nov 22, 2024Nov 22, 2024

• imcf-fiji-mocks

  Public
  Python mocks 🧌 providing dummy imports e.g. for testing the IMCF Fiji Python packages.

  Python

  •0•0•0•0•Updated Nov 19, 2024Nov 19, 2024

• python-micrometa

  Public
  ☕ 🐍 🔬 Package for processing metadata from various light-microscopy related data formats.

  imagej2python27jython+ 1jython-library

  Python

  •0•1•0•0•Updated Nov 19, 2024Nov 19, 2024

• jython-scijava-logging

  Public
  🐍☕📑 Jython package for using SciJava's LogService for logging.

  imagej2scijavalogging+ 2jythonjython-library

  Python

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Nov 14, 2024Nov 14, 2024

• auto-tx

  Public
  Official GitHub mirror of the AutoTx intelligent background transfer service.

  windowsservicedotnet+ 4data-transferemail-notificationspoolingtransfer-service

  C#

  •

  GNU General Public License v3.0

  •1•25•2•0•Updated Nov 13, 2024Nov 13, 2024

• omero-scripts

  Public
  Extracted OmeroPy/scripts directory for local modifications.

  Python

  •32•0•0•0•Updated Nov 13, 2024Nov 13, 2024

• imcf-fiji-scripts

  Public
  🔧 📝 ☕ 🔬 Scripts for Fiji provided by the Imaging Core Facility, Biozentrum, University of Basel

  image-processingimageprocessingimagej+ 2fijifacility

  Python

  •

  GNU General Public License v3.0

  •2•1•0•0•Updated Oct 29, 2024Oct 29, 2024

• hrm

  Public
  The Huygens Remote Manager is an open-source, efficient, multi-user web-based interface to the Huygens software by Scientific Volume Imaging for parallel batch deconvolutions.

  PHP

  •

  Other

  •9•0•0•0•Updated Oct 24, 2024Oct 24, 2024

• rlm-prometheus

  Public
  Prometheus exporter providing metrics from a Reprise License Manager (RLM) instance.

  pythonprometheusreprise+ 3imarisrlmlicense-metrics

  HTML

  •

  GNU General Public License v3.0

  •2•5•1•0•Updated Sep 20, 2024Sep 20, 2024

• omero-py

  Public
  Python project containing Ice remoting code for OMERO

  Python

  •

  GNU General Public License v2.0

  •32•0•0•0•Updated Jun 25, 2024Jun 25, 2024

• omero-documentation

  Public
  Sphinx-based documentation for the Open Microscopy Environment

  Shell

  •

  BSD 2-Clause "Simplified" License

  •51•0•0•0•Updated Jun 25, 2024Jun 25, 2024

• omero-common

  Public
  Gradle project containing common utilities for OMERO

  Java

  •

  GNU General Public License v2.0

  •11•0•0•0•Updated Jun 25, 2024Jun 25, 2024

• openmicroscopy

  Public
  OME (Open Microscopy Environment) develops open-source software and data format standards for the storage and manipulation of biological light microscopy data. A joint project between universities, research establishments and industry in Europe and the USA, OME has over 20 active researchers with strong links to the microscopy community. Funded …

  Java

  •

  GNU General Public License v2.0

  •102•0•0•0•Updated Jun 25, 2024Jun 25, 2024

• omero-prometheus-tools

  Public
  Utilities for monitoring OMERO with Prometheus

  Python

  •9•0•0•0•Updated Jun 20, 2024Jun 20, 2024

• Baysor

  Public
  Bayesian Segmentation of Spatial Transcriptomics Data

  Julia

  •

  MIT License

  •31•0•0•0•Updated Jun 18, 2024Jun 18, 2024

• vpt-plugin-cellpose2

  Public
  Python

  •

  Apache License 2.0

  •1•0•0•0•Updated Mar 27, 2024Mar 27, 2024

• vizgen-postprocessing

  Public
  Python

  •

  Apache License 2.0

  •5•0•0•0•Updated Mar 27, 2024Mar 27, 2024

• vpt-core

  Public
  Core components of the Vizgen Post-processing Tool

  Python

  •

  Apache License 2.0

  •2•0•0•0•Updated Mar 22, 2024Mar 22, 2024

• vpt-plugin-cellpose

  Public
  Cellpose plugin for the Vizgen Post-processing Tool

  Python

  •

  Apache License 2.0

  •2•0•0•0•Updated Mar 19, 2024Mar 19, 2024

• imcf-iap-template

  Public
  0•0•0•0•Updated Feb 29, 2024Feb 29, 2024

• I2K_ST_data_analysis

  Public
  Jupyter Notebook

  •1•0•0•0•Updated Dec 13, 2023Dec 13, 2023

• ArgoLight_analysis_tool

  Public
  Code to control the quality of images taken with our microscopes

  Java

  •

  BSD 3-Clause "New" or "Revised" License

  •1•0•0•0•Updated Nov 29, 2023Nov 29, 2023

• ijl-utilities-wrappers

  Public
  Wrappers for external software calls (Cellpose, Elastix, Ilastix...) and java utilities (object conversions and display)

  Java

  •6•0•0•0•Updated Oct 18, 2023Oct 18, 2023

• psytricks

  Public
  PowerShell-Python-Citrix vodoo. 👽 😵

  pythonpowershellpoetry+ 2citrixcvad

  Python

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Oct 6, 2023Oct 6, 2023

• imcf.github.io

  Public
  IMCF github pages

  HTML

  •

  Other

  •0•0•0•0•Updated Sep 26, 2023Sep 26, 2023

• pyppms

  Public
  📑 🕙 🐍 A Python package to communicate with Stratocore's PUMAPI.

  pythonweb-apibooking-system+ 3ppmspumapiresearch-facility

  Python

  •2•4•1•1•Updated Jul 7, 2023Jul 7, 2023

• lxc-scripts

  Public
  🚚 🚧 Scripts and stuff to automatically create LXC containers in various flavours.

  Shell

  •

  GNU General Public License v3.0

  •2•6•0•0•Updated Jun 27, 2023Jun 27, 2023

• logging-interceptor

  Public
  Code to integrate Loguru with Python's standard logging module

  pythonloggingloguru

  Python

  •

  MIT License

  •2•0•0•0•Updated Jun 16, 2023Jun 16, 2023

• citrix-virtual-apps-desktops-sdk

  Public
  6•0•0•0•Updated Mar 23, 2023Mar 23, 2023

• ipmitool-prometheus-textfile

  Public
  Wrapper for the "ipmitool" Prometheus textfile collector.

  prometheushwmonprometheus-textfile-exporter+ 1ipmitools

  Awk

  •0•0•0•0•Updated Mar 17, 2023Mar 17, 2023