hubmapconsortium / spatial-transcriptomics-pipeline
☆29Updated 10 months ago
Alternatives and similar repositories for spatial-transcriptomics-pipeline:
Users that are interested in spatial-transcriptomics-pipeline are comparing it to the libraries listed below
- A probabilistic cell typing algorithm for spatial transcriptomics.☆23Updated this week
- Probabilistic cell segmentation for in situ spatial transcriptomics☆66Updated this week
- The Vizgen Post-processing Tool (VPT) enables users to reprocess and refine the single-cell results of MERSCOPE experiments.☆26Updated 6 months ago
- ☆27Updated 5 months ago
- A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas☆57Updated this week
- A Python toolkit for subcellular analysis of spatial transcriptomics data☆76Updated 3 weeks ago
- ☆25Updated 5 months ago
- Image Mass Cytometry analysis pipeline☆25Updated last month
- Python package for Probe set selection for targeted spatial transcriptomics.☆35Updated 3 months ago
- Tools to handle IMC data☆23Updated 2 years ago
- Interoperability between SpatialData and the Xenium Explorer☆19Updated 7 months ago
- A scalable machine learning pipeline for probe specificity prediction.☆14Updated last year
- ☆33Updated this week
- Single-cell spatial proteomics analysis that makes you happy!☆23Updated last week
- Spatialproteomics is a light weight wrapper around xarray with the intention to facilitate the data exploration and analysis of highly mu…☆17Updated last week
- a scalable python suite for tree inference and advanced pseudotime analysis from scRNAseq data.☆51Updated 2 weeks ago
- Repository for storing prototype functionality implementations for the BKP☆23Updated last week
- R script for calculating the SpatialScore as described in our manuscript: "Immune cell topography predicts response to PD-1 blockade in c…☆14Updated 3 years ago
- Spatial Single-Cell Analysis Toolkit☆86Updated last month
- https://sparrow-pipeline.readthedocs.io/en/latest/☆26Updated 2 weeks ago
- Identification of spatial homogeneous regions☆20Updated 2 months ago
- ☆34Updated 11 months ago
- ☆52Updated 2 weeks ago
- astir | Automated cell identity from single-cell multiplexed imaging and proteomics 🖥🔬✨☆52Updated 9 months ago
- ☆48Updated this week
- SIMPLI is a highly configurable pipeline for the analysis of multiplexed imaging data.☆35Updated last year
- Automate unsupervised machine learning cell type identification using both protein expressions and cell spatial neighborhood information …☆33Updated 10 months ago
- Interactive visualization of spatial omics data☆51Updated this week
- An R package for performing cell typing in SMI and other single cell data☆33Updated 3 months ago