acycliq / pciSeqView external linksLinks
A probabilistic cell typing algorithm for spatial transcriptomics.
☆25Nov 6, 2025Updated 3 months ago
Alternatives and similar repositories for pciSeq
Users that are interested in pciSeq are comparing it to the libraries listed below
Sorting:
- Whole slide image registration through wsireg in napari.☆12Apr 21, 2023Updated 2 years ago
- CAST package☆42Oct 26, 2024Updated last year
- A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas☆66Jul 2, 2025Updated 7 months ago
- ☆13Jul 1, 2021Updated 4 years ago
- Develop custom oligo design pipelines.☆26Updated this week
- Spatial Experiments raster - a rasterization preprocessing framework for scalable spatial omics data analysis☆19Apr 23, 2025Updated 9 months ago
- ☆27Oct 12, 2024Updated last year
- ☆13Feb 27, 2024Updated last year
- Interactive single cell RNA-seq analysis webserver!☆10Mar 15, 2023Updated 2 years ago
- ☆23Mar 26, 2021Updated 4 years ago
- Deep learning based spot detection for FISH images.☆31Jan 7, 2026Updated last month
- spatial transcriptome, single cell☆73Mar 18, 2023Updated 2 years ago
- Bayesian Segmentation of Spatial Transcriptomics Data☆202Dec 10, 2024Updated last year
- iFISH Probe Design: a Python3 package to build iFISH probes.☆12Mar 11, 2022Updated 3 years ago
- Graph-based Decoding for In Situ Sequencing☆10Jul 2, 2020Updated 5 years ago
- ClusterMap for multi-scale clustering analysis of spatial gene expression☆46Jun 13, 2025Updated 8 months ago
- A Python toolkit for subcellular analysis of spatial transcriptomics data☆86Nov 16, 2025Updated 3 months ago
- Technology-invariant pipeline for spatial omics analysis that scales to millions of cells (Xenium / Visium HD / MERSCOPE / CosMx / PhenoC…☆263Updated this week
- 3D Extension of the Cellpose Algorithm by Stringer et al., 2021.☆35Oct 10, 2022Updated 3 years ago
- A python tool to investigate cell overlaps in imaging-based spatial transcriptomics data.☆26Jan 27, 2026Updated 2 weeks ago
- Minimum Information about Tissue Imaging☆21Oct 18, 2023Updated 2 years ago
- Lab for quantitative bioimage analysis experiments in Python☆19Feb 4, 2026Updated last week
- ☆20Jun 26, 2025Updated 7 months ago
- ☆17Jul 8, 2024Updated last year
- Algorithmic and Utility Extensions for the Imaris Program☆20Feb 2, 2026Updated last week
- Sub-cellular spatial transcriptomics Cell Segmentation☆68Oct 1, 2023Updated 2 years ago
- Django-based OMERO.web client☆23Updated this week
- ☆18Oct 22, 2024Updated last year
- Package for the analysis of Transcripts outside segmented cells in ST data☆26Updated this week
- scRNA-seq clustering, visualization, and differential expression pipeline from Sims Lab papers☆22Sep 28, 2021Updated 4 years ago
- Scripts from the GBM cellular states paper☆20Feb 24, 2021Updated 4 years ago
- ☆22Aug 17, 2023Updated 2 years ago
- GIve easy, high-level access to ome-zarr fileset☆22Sep 22, 2025Updated 4 months ago
- Inclusive and efficient quantification of labeling and splicing RNAs for time-resolved metabolic labeling based scRNA-seq experiments☆19Aug 12, 2025Updated 6 months ago
- Semi-supervised adversarial neural networks for classification of single cell transcriptomics data☆77Jan 23, 2026Updated 3 weeks ago
- A novel machine learning pipeline to analyse spatial transcriptomics data☆239Jan 9, 2026Updated last month
- tutorials for spateo package☆20Dec 25, 2024Updated last year
- GeneSCF moved to a dedicated GitHub page, https://github.com/genescf/GeneSCF☆19Oct 30, 2020Updated 5 years ago
- Quickly find the affine matrix mapping one image to another using manual correspondence points annotation☆22Aug 6, 2025Updated 6 months ago