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.
• 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.
• nomad-camels — CAMELS is a configurable measurement software, targeted towards the requirements of experimental solid-state physics.
• 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
• 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