Files associated with the From Samples To Knowledge 2025 QuPath training course
☆14Feb 6, 2026Updated 3 weeks ago
Alternatives and similar repositories for FS2K
Users that are interested in FS2K are comparing it to the libraries listed below
Sorting:
- The official QuPath extension for InstanSeg☆29Jan 21, 2026Updated last month
- ☆12Feb 5, 2026Updated 3 weeks ago
- Repo for CCN workshop on caiman and mesmerize in January 2023☆13Mar 3, 2023Updated 3 years ago
- A package that performs cell type annotations on single cell resolution of spatial transcriptomics data, find the niche interactions and …☆14Dec 5, 2025Updated 2 months ago
- QuPath extension to interactively align images☆26Aug 7, 2025Updated 6 months ago
- Single Cell Pretrained Regulatory network INference from Transcripts☆11Sep 17, 2024Updated last year
- Materials for the "ImageJ/Fiji Level 2: Automation and batch processing using macros" course taught at the Wolfson Bioimaging Facility, U…☆12Jan 24, 2022Updated 4 years ago
- R-package to perform metabolomics pre-processing, differential metabolite analysis, metabolite clustering and custom visualisations.☆17Feb 18, 2026Updated 2 weeks ago
- Visualizing feature measurements on label images in napari☆10Jul 24, 2024Updated last year
- ImageJ macros to run Cellpose from Fiji (using the plugin from BIOP-EPFL) and to match nuclei and cell body label maps.☆19Mar 11, 2025Updated 11 months ago
- Lab for quantitative bioimage analysis experiments in Python☆19Feb 16, 2026Updated 2 weeks ago
- ilastik plugin for napari☆14Dec 15, 2025Updated 2 months ago
- Convert your single-cell/spatial analyses to parallel HPC/cloud workflows just using pipes in R☆17Dec 18, 2024Updated last year
- Template to help create a new QuPath extension☆21Aug 12, 2025Updated 6 months ago
- QuPath extension to run StarDist nucleus detection☆48Jul 2, 2025Updated 8 months ago
- End-to-end model for cell segmentation and classification☆23Jan 13, 2025Updated last year
- QuPath extension for Cellsparse☆19May 6, 2025Updated 9 months ago
- A short course exploring several fun and useful notebooks and Napari widgets for deep learning with SAM, Cellpose, Stardist and friends.☆19Dec 9, 2025Updated 2 months ago
- PAthological QUpath Obsession - QuPath and Python conversations☆134Aug 29, 2025Updated 6 months ago
- QuST: QuPath Extension for Integrative Whole Slide Image and Spatial Transcriptomics Analysis☆34Jun 22, 2025Updated 8 months ago
- PoL Bioimage Analysis Training School: GPU-Accelerated Image Analysis Track☆28Jun 5, 2024Updated last year
- Resources for teaching/preparing to teach bioimage analysis☆58Feb 25, 2026Updated last week
- Framework for image and flow cytometry analysis☆32Jan 3, 2026Updated 2 months ago
- An R package to download and merge labeled single-cell RNA-seq data from the PanglaoDB database into a Seurat object.☆26Jun 1, 2023Updated 2 years ago
- Clone of the Bioconductor repository for the scRNAseq package.☆29Oct 10, 2025Updated 4 months ago
- ☆214Feb 4, 2026Updated last month
- ☆33Updated this week
- Piecewise alignment for layers of mosaics☆36Feb 18, 2026Updated 2 weeks ago
- ☆14Jul 1, 2025Updated 8 months ago
- Program and links to the material for the GloBIAS Training School 2025, Kobe, Japan.☆22Oct 27, 2025Updated 4 months ago
- Resources for and by the #codingForChemists Discord community!☆10Jun 18, 2023Updated 2 years ago
- Scripts and files for the annual Short Read Analysis Workshop☆12Jul 21, 2025Updated 7 months ago
- Imperial College London / Graduate School / Data Science / Data Exploration & Visualisation☆10Apr 17, 2024Updated last year
- Segmentation method able to detect membrane/nuclei-labelled cells with low signal-to-noise ratio and dense packing in 2D and 3D. Availabl…☆34Oct 8, 2025Updated 4 months ago
- Code used to analyze single cell RNA and ATAC sequencing in developing human brain☆35Jan 4, 2022Updated 4 years ago
- StarDist plugin for ImageJ☆30May 9, 2022Updated 3 years ago
- Easy and comprehensive biological network reconstruction and analysis☆35Sep 15, 2025Updated 5 months ago
- A manually curated database of literature-supported ligand-receptor interactions in human and mouse☆34Jul 1, 2024Updated last year
- Classification of Single cells by Transfer Learning☆10Oct 11, 2025Updated 4 months ago