Reverse Dependencies of PIMS

The following projects have a declared dependency on PIMS:

• agh-vqis — A Python wrapper for 18 image quality indicators.
• aind-large-scale-prediction — Generated from aind-library-template
• autoballs — Python package for segmentation of axons and morphological analysis.
• bioimage — bioimage - library to make working with biomedical images more comfortable
• crl-datacube — Utilities for scaling geospatial analyses
• dask-image — Distributed image processing
• databroker — Unification of NSLS-II data sources
• fishsound-finder — Python software to automatically detect fish sounds in passive acoustic recordings
• fluidimage — Fluid image processing with Python.
• fret-ibra — FRET-IBRA is used to process fluorescence resonance energy transfer (FRET) intensity data to produce ratiometric images for further analysis
• fsvpy — Streak identification and quantification for fluorescent streak velocimetry
• hcai-discover-utils — This repository contains utility functions and interfaces that can be used to interact with the DISCOVER framework.
• hcai-nova-utils — This repository contains utility functions and interfaces that can be used to interact with the NOVA annotation tool.
• htsimaging — High-Throughput Single-cell Imaging analysis.
• inex-library — A comprehensive Python library for AI integration, web development with FastAPI/Flask, advanced encryption, secure database management, file operations, library development, text styling, system management, translation services, video creation, web automation, and cryptocurrency token analysis. Features include JWT handling, password management, rate limiting, input sanitization, and more.
• kso-utils — A package containing utility scripts for use with KSO analysis notebooks.
• looming-spots — looming experiment analysis
• miplib — A Python software library for (optical) microscopy image restoration, reconstruction and analysis.
• mmaction2 — OpenMMLab Video Understanding Toolbox and Benchmark
• multivitamin — Serving infrastructure for ML and CV models
• nanoqnt — Software for analysing the data generated with the nanoQNT device. It includes a practical GUI as well as a module that can be extended and used in custom scripts.
• napari-bioformats — Bioformats for napari, using pims
• napari-live-recording — A napari plugin for live video recording with a generic camera device.
• napari-pims-bioformats — PIMS bioformats plugin for napari
• nd2-extractor — A simple tool to extract ND2 files to Zarr, PNG, or TIFF
• nd2reader — A tool for reading ND2 files produced by NIS Elements
• Neurotorchmz — Neurotorch is a tool designed to extract regions of synaptic activity in neurons tagges with iGluSnFR, but is in general capable to find any kind of local brightness increase due to synaptic activity
• nima-io — A project to read microscopy files.
• otxmmaction2 — OpenMMLab Video Understanding Toolbox and Benchmark
• p-tree — A program for counting CFUs in petri dishes
• pharaglow — A toolset to analyze videos of foraging animals.
• pimsviewer — Viewer for Python IMage Sequence (PIMS).
• pyjacket — Lorem ipsum
• Qiber3D — Automated quantification of fibrous networks
• radiantkit — Radial Image Analysis Toolkit
• rainbow-optical-flow — Automated air liquid interface cell culture analysis using deep optical flow.
• sixtools — Software for performing resonant inelastic xray scattering analysis at NSLS-II
• stars-omics — A spatial transcriptomics analysis tool.
• stytra — A modular package to control stimulation and track behavior experiments.
• track-tools — Collection of scripts and wrappers around trackpy.
• webknossos — Python API for working with WEBKNOSSOS datasets, annotations, and for WEBKNOSSOS server interaction.
• weldx — Python API for the WelDX file format and standard
• wfield — Utilities to look at widefield data and align with the allen reference map.
• zetastitcher — ZetaStitcher is a tool designed to stitch large volumetric images such as those produced by Light-Sheet Fluorescence Microscopes.
• zolfa-nd2reader — A tool for reading ND2 files produced by NIS Elements