Reverse Dependencies of imagecodecs

The following projects have a declared dependency on imagecodecs:

• 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-ctc-io — Drag and drop/write tracks from/to the Cell Tracking Challenge (CTC) format.
• napari-czifile2 — Carl Zeiss Image (.czi) file support for napari
• napari-dab-cellcount — A napari plugin for counting cells.
• napari-dmc-brainmap — Image analysis pipeline for quantification of 2D mouse brain anatomical tracing data
• 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-open-ctc — "Drag and drop annotations/results in the Cell Tracking Challenge (CTC) format into napari."
• napari-prism — A Python package for the inteRactive and Integrated analySis of Multiplexed tissue microarrays
• napari-tiff — official napari tiff reader and writer.
• napari-tifffile-reader — A napari reader plugin for tiff images.
• napari-unicell — universal cell segmentation models
• 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.
• nellie — Automated organelle segmentation, tracking, and hierarchical feature extraction in 2D/3D live-cell microscopy
• 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.
• nnunetv2-bm-custom — 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.
• OpenPatchMiner — A patch miner for large histopathology images
• opentile — Read tiles from wsi-TIFF files
• openwholeslide — Wrapper around tifffile library to have the same API as OpenSlide.
• operetta-compose — Fractal tasks for the Opera/Operetta microscope and drug response profiling
• opticallyshallowdeep — Identify optically shallow and deep waters in satellite imagery
• oresat-star-tracker — OreSat Star Tracker OLAF app
• otauto — vnc_tool
• palom — Piecewise alignment for layers of mosaics
• panimg — Conversion of medical images to MHA and TIFF.
• PartSeg — PartSeg is python GUI and set of napari plugins for bio imaging analysis especially nucleus analysis,
• pathpretrain — Simple setup train image models.
• PEPITA-tools — Pipeline for quantifying hair cell health in whole-zebrafish images.
• pharaglow — A toolset to analyze videos of foraging animals.
• phas — PICSL Histology Annotation Server (PHAS)
• pixelpartitioner — Tools for pixel partitioning, intensity-based segmentation, and visualization.
• plantdb.commons — Core shared library for the ROMI (Robotics for Microfarms) plant database ecosystem.
• polaris-lib — Client for the Polaris Hub.
• popidd-io — A simple plugin to read digital pathology images and annotations Made at the IPU (ICR/RMH).
• psdtags — Read and write layered TIFF ImageSourceData and ImageResources tags
• py-ctcmetrics — Metrics for Cell Tracking Challenges
• pyBCS-bioturing — Create BioTuring Compressed Study (bcs) file
• pyfedic — Digital Image (2D/3D) Correlation Software
• pyfigures — PyFigures will assist you assemble publication ready scientific figures in no time.
• pylena — Image processing library
• pylibs-ocean — python tools for ocean reserach
• pyometiff — Read and Write OME-TIFFs in Python
• pyptv — Python GUI for the OpenPTV library `liboptv`
• pySTIM — A python package for spatial omics analysis
• python-lung-morphometrics — A set of tools for measuring MLI and the like.
• raster-codecs — Numcodecs implementations of codecs commonly used by raster data.
• rasteret — Fast and efficient access to Cloud-Optimized GeoTIFFs (COGs)
• renumics-spotlight — Visualize and maintain datasets to develop and understand data-driven algorithms.
• rhizonet — Segmentation pipeline for EcoFAB images
• rosettasciio — Reading and writing scientific file formats
• rstojnic-tfds-nightly — tensorflow/datasets is a library of datasets ready to use with TensorFlow.
• saenopy — Semi-elastic fiber optimisation in python.
• satsim — Satellite observation and scene simulator.
• scalingtheunet — This project is the source code to our paper.
• scarr — Scarr (Multi-Resolution Zarr) is a Python library for working with the Scarr image format
• scifo — Scifo (Scientific Zarr) is a Python library for working with the Scifo image format
• SGBench — A collection of metrics for scene graph generation
• simfcs — Install requirements for the SimFCS software
• simfire — Fire simulator built in Python
• SimpliPyTEM — A python package to simplify the processing and analysis of TEM and in situ TEM images and videos
• skoots — SKeletOn ObjecT Segmentation (SKOOTS)
• slcpy — Python package to decode Amira 3D coordinate spatial graphs into semantic label mask
• slimoneat — Static and Dynamic classification tool.
• SLIX — SLIX allows an automated evaluation of SLI measurements and generates different parameter maps.
• snowcast-Malachyiii — A package for pulling down satellite imagery for snow forcasting
• spatialdata-io — SpatialData IO for common techs
• ssnp — Split-step non-paraxial beam propagation simulation package
• st-visium-datasets — no summary
• stars-omics — A spatial transcriptomics analysis tool.
• stio — IO for Stereo Cell
• strong-image-creation — A package to create summed images from a series of tiff or h5 files in a folder.
• subsurface-terra — Subsurface data types and utilities. This version is the one used by Terranigma Solutions. Please feel free to take anything in this repository for the original one.
• sukta — Personalized training loop utilities for ML, RL, Robotics
• swcgeom — Neuron geometry library for swc format
• synthesisai — Python library for loading synthetic data for ML use cases
• tardis-em — PyTorch segmentation of 2D/3D images such as electron tomography (ET),Cryo-EM or fluorescent microscopy data into 3D segmented point cloud.
• tensorflow-datasets — tensorflow/datasets is a library of datasets ready to use with TensorFlow.
• tfds-nightly — tensorflow/datasets is a library of datasets ready to use with TensorFlow.
• tfds-nightly-gradient — tensorflow/datasets is a library of datasets ready to use with TensorFlow.
• tiatoolbox — Computational pathology toolbox developed by TIA Centre.