applied-systems-biology / jipipeLinks
Java Image Processing Pipeline (JIPipe) is a graphical batch processing language for the ImageJ ecosystem
☆18Updated 6 months ago
Alternatives and similar repositories for jipipe
Users that are interested in jipipe are comparing it to the libraries listed below
Sorting:
- ☆29Updated last year
- Transform CellProfiler and DeepProfiler data for processing image-based profiling readouts with Pycytominer and other Cytomining tools.☆17Updated this week
- script + metadata = standalone component☆44Updated last week
- Framework for image and flow cytometry analysis☆32Updated 2 months ago
- ☆21Updated this week
- An end-to-end processing pipeline that transforms multi-channel whole-slide images into single-cell data.☆27Updated 2 weeks ago
- Develop custom oligo design pipelines.☆25Updated last week
- https://sparrow-pipeline.readthedocs.io/en/latest/☆33Updated last week
- Graph-based Decoding for In Situ Sequencing☆10Updated 5 years ago
- iFISH Probe Design: a Python3 package to build iFISH probes.☆12Updated 3 years ago
- TissUUmaps is a browser-based tool for fast visualization and exploration of millions of data points overlaying a tissue sample. TissUUma…☆24Updated 2 years ago
- SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.☆39Updated 2 months ago
- ☆15Updated last year
- Build contrasts for models defined with formulaic☆13Updated last week
- ☆62Updated last week
- WebGL-based viewer for spatially-resolved transcriptomics data☆28Updated 2 years ago
- Analyzing cellular niches in spatial transcriptomics data☆33Updated last year
- A web-based, time-series visualizer for tracked segmented data.☆12Updated last week
- a modified version of FunSeq2 using new data context☆15Updated 3 years ago
- ☆19Updated last year
- Netbooks is a JupyterHub catalog of use cases in gene regulatory network inference using netZoo methods..☆45Updated last month
- A data-centric flow/mass cytometry automated analysis framework☆42Updated 10 months ago
- ☆18Updated 4 months ago
- A network based gene classification library to generate genome wide predictions about genes that are functionally similar to the input ge…☆20Updated 2 weeks ago
- Spatial Transcriptomics Dashboard☆27Updated 2 years ago
- Optimal gating strategies for flow and mass cytometry.☆16Updated last month
- Predicting Cell Health with Morphological Profiles☆39Updated 3 years ago
- User-submitted RNA-seq data analysis tools for BioJupies.☆20Updated 4 months ago
- Minimum Information about Tissue Imaging☆21Updated 2 years ago
- Biology-driven deep generative model for cell-type annotation in cytometry. Scyan is an interpretable model that also corrects batch-effe…☆39Updated last year