Reverse Dependencies of imagecodecs

The following projects have a declared dependency on imagecodecs:

• aicsimageio — Image Reading, Metadata Conversion, and Image Writing for Microscopy Images in Pure Python
• aideml — Autonomous AI for Data Science and Machine Learning
• aiocogeo — Asynchronous cogeotiff reader
• apeer-ometiff-library — Library to read and write ometiff images
• aydin — Aydin - Denoising but chill
• bfio — Simple reading and writing classes for tiled tiffs using Bio-Formats.
• biapy — BiaPy: Bioimage analysis pipelines in Python
• bioimageloader — load bioimages for machine learning
• bioio-ome-tiff — A BioIO reader plugin for reading tiff files in the OME format.
• bioio-tifffile — A BioIO reader plugin for reading TIFFs using Tifffile
• bipl — Openslide/libtiff/GDAL ndarray-like interface and lazy parallel tile-based processing
• cell-bin — A framework for generating single-cell gene expression data
• celldega — no summary
• cellmaps-sdk — The SDK for tool builders who wish to integrate their tool into the CellMaps Analysis Workflow IME
• cellpose — anatomical segmentation algorithm
• cellpose-napari — a generalist algorithm for anatomical segmentation
• cellpose-omni — cellpose fork developed for omnipose
• cellpose-omni-acdc — cellpose fork developed for omnipose
• cellpose-vollseg — modification of cellpose algorithm
• cgohlke — Install all packages by cgohlke
• clickpoints — Scientific toolbox for manual and automatic image evaluation.
• CloudReg — Automatic terabyte-scale cross-modal brain volume registration
• cmapfile — Write Chimera Map (CMAP) files
• competitionassay — Software for the analysis of competition assay data.
• confluentfucci — no summary
• cryohub — IO hub for Cryo-EM, Cryo-ET and subtomogram averaging data.
• czifile — Read Carl Zeiss(r) Image (CZI) files
• dcclab — A Python library to read, transform, manipulate images and manage databases
• deepflash2 — A Deep learning pipeline for segmentation of fluorescent labels in microscopy images
• descarteslabs — Descartes Labs Python Client
• dosertools — dosertools is a Python package for analyzing dripping-onto-substrate extensional rheology (DoSER) videos.
• easyidp — A handy tool for dealing with region of interest (ROI) on the image reconstruction (Metashape & Pix4D) outputs, mainly in agriculture applications
• ellipsis — Package to interact with the Ellipsis API
• empanada-dl — Algorithms for Panoptic Segmentation of organelles in EM
• empanada-napari — Napari plugin of algorithms for Panoptic Segmentation of organelles in EM
• eyepie — A python package to read, analyse and visualize OCT and fundus data form various sources.
• eyepy — A python package to read, analyse and visualize OCT and fundus data form various sources.
• farmlayers — Helper scripts for fetching and managing basic input layers Farm Mapping
• fibresem — A small package to automate the SEM analysis of fibrous meshes
• FiReTiTiPyLib — Python libraries used as support/tools.
• Foscat — Generate synthetic Healpix or 2D data using Cross Scattering Transform
• frmodel — The base package to support frmodel data processing
• generate-dense-patches — A simple plugin to create a lot of training data from a 3D volume and mask
• graphite-datasets — tensorflow/datasets is a library of datasets ready to use with TensorFlow.
• herbs — A Python-based GUI for Histological E-data Registration in Brain Space
• histo-patch — histopatch: image patch extraction from Whole Slide Images
• histo-tools — General histology tools.
• histomics_stream — Whole-slide image streamer for machine learning frameworks.
• hmsm — Tools for image based digitization of historical music storage media
• imagecodecs-lite — The imagecodecs-lite package is deprecated. Use the imagecodecs package instead.
• imagecodecs-numcodecs — Numcodecs entry points for the imagecodecs package
• imaxt-image — IMAXT Image Utilities
• imctools — Tools to handle Fluidigm IMC data
• ipp-toolkit — A general framework for informative path planning experiments, with a focus on wrapping datasets, sensors, planners, and visualization in a modular manner
• jcell — Software package for training and testing deep learning based method applied to image segmentation
• jcell-ISBI — Software package for training and testing deep learning based method applied to image segmentation
• jinxif — A python3-based image analysis package to achieve fully-documented and reproducible visualization and analysis of bio-medical microscopy images. This is a fork from Jennifer Eng`s mplex_image software library.
• jpeg-xl-float-with-nans — JpegXlFloatWithNaNs is a codec for numcodecs for compressing image data in Zarr/Xarray
• lacss — Cell segmentation and tracking
• lfdfiles — Laboratory for Fluorescence Dynamics (LFD) file formats
• magellanmapper — 3D atlas analysis and annotation
• maphis — Hierarchical segmentation and extraction of various measurements from photos of (not only) arthropods.
• MILWRM — Multiplex Image Labeling With Regional Morphology
• minerva-lib — Minerva Python library
• miso — Python scripts for training CNNs for particle classification
• miso2 — Python scripts for training CNNs for particle classification
• monai — AI Toolkit for Healthcare Imaging
• monai-weekly — AI Toolkit for Healthcare Imaging
• morphapi — A lightweight python package to download neuronal morphologies
• mplexable — A python3-based image analysis package to achieve fully-documented and reproducible visualization and analysis of bio-medical microscopy images. This is a fork from Jennifer Eng`s mplex_image software library.
• multiplex-imaging-pipeline — A Python library for multiplex imaging analysis
• Mzarr — Mzarr (Multi-Resolution Zarr) is a Python library for working with the Mzarr image format
• n2v — Noise2Void allows the training of a denoising CNN from individual noisy images. This implementationextends CSBDeep.
• napari-annotatorj — The napari adaptation of the ImageJ/Fiji plugin AnnotatorJ for easy image annotation.
• napari-bacseg — Bacterial segmentation and analysis platform than can inport/export files in multiple formats. Integrating many tools such as Cellpose, ColiCoords, Oufti/MicrobeTracker.
• napari-bil-data-viewer — Napari plugin for viewing Brain Image Library datasets
• napari-boardgame-maker — Make boardgame tiles
• napari-cellseg3d — Plugin for cell segmentation in 3D
• napari-czifile2 — Carl Zeiss Image (.czi) file support for napari
• napari-dab-cellcount — A napari plugin for counting cells.
• napari-imagecodecs — A napari plugin for reading files via imagecodecs
• napari-imsmicrolink — Plugin to perform IMS to microscopy registration using laser ablation marks.
• napari-mzarr — A reader and writer plugin for the Mzarr image format.
• napari-nyxus — A napari plugin for calculating features from intensity-label image data
• napari-tiff — official napari tiff reader and writer.
• napari-tifffile-reader — A napari reader plugin for tiff images.
• napari-unicell — universal cell segmentation models
• napari-wsi — A plugin to read whole slide images within napari.
• napping — Control point mapping and coordination transformation using napari
• nd2 — Yet another nd2 (Nikon NIS Elements) file reader
• ndbioimage — Bio image reading, metadata and some affine registration.
• neuroglancer-scripts — Conversion of images to the Neuroglancer pre-computed format
• ngff-zarr — A lean and kind Open Microscopy Environment (OME) Next Generation File Format (NGFF) Zarr implementation.
• nis2pyr — Utility for converting Nikon ND2 files to tiled pyramidal OME TIFF files.
• nnunetv2 — nnU-Net is a framework for out-of-the box image segmentation.
• nucleaizer-backend — The backend for the nucleAIzer nuclei segmentation method.
• odc-geo — Geometry Classes and Operations (opendatacube)
• OmeSliCC — Ome(ro) Slide Image Conversion and Compression pipeline
• oneat — Action classification for TZYX/TYX shaped images, Static classification for TYX/YX shaped images
• oneat-slim — Static and Dynamic classification tool.