haniffalab / webatlas-pipelineLinks
A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas
☆65Updated 6 months ago
Alternatives and similar repositories for webatlas-pipeline
Users that are interested in webatlas-pipeline are comparing it to the libraries listed below
Sorting:
- A Python toolkit for subcellular analysis of spatial transcriptomics data☆86Updated last month
- ☆24Updated last month
- Python package for Probe set selection for targeted spatial transcriptomics.☆48Updated 2 months ago
- Weakly supervised learning uncovers phenotypic signatures in single-cell data☆38Updated 3 weeks ago
- ☆64Updated last week
- a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.☆65Updated last month
- Identification of spatial homogeneous regions☆21Updated 3 months ago
- ☆57Updated last year
- ☆58Updated last month
- Probabilistic cell segmentation for in situ spatial transcriptomics☆145Updated 3 weeks ago
- Multi-agent LLM driven cell type annotation for single-cell RNA-Seq data☆94Updated last month
- Spatial Single-Cell Analysis Toolkit☆106Updated last week
- ☆29Updated last year
- A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.☆147Updated last month
- CZ CELLxGENE Discover Census☆114Updated this week
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆69Updated 2 months ago
- ☆48Updated this week
- Multimodal Data (.h5mu) implementation for Python☆105Updated last month
- Bring your single-cell data to life☆91Updated last month
- Spatialproteomics is a light weight wrapper around xarray with the intention to facilitate the data exploration and analysis of highly mu…☆39Updated 3 weeks ago
- https://sparrow-pipeline.readthedocs.io/en/latest/☆33Updated 3 weeks ago
- ☆87Updated this week
- Spatial Transcriptomics Algorithm Reconstructing Copy-number Heterogeneity☆29Updated last year
- List of Spatial Transcriptomics related Tools organized per category☆101Updated last week
- GASTON: deep learning algorithm learns "topography" of a tissue slice from spatial transcriptomics data☆70Updated last month
- Image Mass Cytometry analysis pipeline☆26Updated 7 months ago
- An end-to-end processing pipeline that transforms multi-channel whole-slide images into single-cell data.☆29Updated 3 weeks ago
- Probabilistic Alignment of Spatial Transcriptomics Experiments v.2☆41Updated 10 months ago
- Analyzing cellular niches in spatial transcriptomics data☆34Updated last year
- This repository is an exploratory resource to accelerate opensource analysis of CosMx® Spatial Molecular Imager (SMI) data. Contained her…☆91Updated this week