Pinned Repositories
collection-bioimage-io
(deprecated in favor of bioimage-io/collection) RDF collection for BioImage.IO
core-bioimage-io-python
Python libraries for loading, running and packaging bioimage.io models
spec-bioimage-io
Specification for the bioimage.io model description file.
05_image_segmentation
advanced_python_2019_EBI
Advanced Python Course for PreDoc Training at the EBI
collection-bioimage-io
RDF collection for BioImage.IO
ilastik
ilastik-shell, applets, and workflows to string them together.
tiktorch
Wrappers for Pytorch
torch-em
Deep-learning based semantic and instance segmentation for 3D Electron Microscopy and other bioimage analysis problems based on pytorch.
FynnBe's Repositories
FynnBe/ilastik
ilastik-shell, applets, and workflows to string them together.
FynnBe/05_image_segmentation
FynnBe/collection-bioimage-io
RDF collection for BioImage.IO
FynnBe/tiktorch
Wrappers for Pytorch
FynnBe/torch-em
Deep-learning based semantic and instance segmentation for 3D Electron Microscopy and other bioimage analysis problems based on pytorch.
FynnBe/BiaPy-bioimage-io
BiaPy's BMZ connection
FynnBe/bioimage-io-models
Model repository for bioimage.io
FynnBe/bioimage-io-models-1
Model repo for bioimage.io
FynnBe/bioimage.io
Website for the BioImage Model zoo -- a model zoo for bioimage analysis.
FynnBe/bioimageio-ambitious-sloth
draft for a model repo
FynnBe/bioimageio-contribute
common resources for bioimageio contributions
FynnBe/cellpose
a generalist algorithm for cellular segmentation with human-in-the-loop capabilities
FynnBe/dataclass-argparse
Define command line arguments as type annotated namespace dataclasses
FynnBe/DL-MBL-2021
Exercise repository for the DL@MBL 2021 Course
FynnBe/elf
Utils and convenience functions for large-scale bio-image analysis.
FynnBe/HPA-model-zoo
A collection of deep learning models for analyzing the Human Protein Atlas images.
FynnBe/hypha
A serverless application framework for large-scale data management and AI model serving
FynnBe/models
FynnBe/nucleoli_segment
FynnBe/plant-seg
A tool for cell instance aware segmentation in densely packed 3D volumetric images
FynnBe/processing-bioimage-io-draft
draft pre- and postprocessing with docker images
FynnBe/pydantic
Data validation using Python type hints
FynnBe/pydantic-core
Core validation logic for pydantic written in rust
FynnBe/qupath-bioimage-io
QuPath resources for Bioimage.IO
FynnBe/sandbox
FynnBe/schemastore
A collection of JSON schema files including full API
FynnBe/spec-bioimage-io
Specification for the bioimage.io model description file.
FynnBe/stardist
StarDist - Object Detection with Star-convex Shapes
FynnBe/training-material
A collection of Galaxy-related training material
FynnBe/ZeroCostDL4Mic
ZeroCostDL4Mic: A Google Colab based no-cost toolbox to explore Deep-Learning in Microscopy