seqscope / STtoolsLinks
☆10Updated 2 years ago
Alternatives and similar repositories for STtools
Users that are interested in STtools are comparing it to the libraries listed below
Sorting:
- A data pipeline built in Nextflow to process spatial and single-cell experiment data for visualisation in WebAtlas☆62Updated 3 weeks ago
- Tutorials for the SCOG Virtual Workshop ‘Spatial transcriptomics data analysis in Python’ - May 23-24, 2022☆53Updated 2 years ago
- An R package for performing cell typing in SMI and other single cell data☆37Updated 2 weeks ago
- scType goes spatial: ScType enables fast and accurate cell type identification from spatial transcriptomics data☆9Updated 10 months ago
- ☆19Updated 2 weeks ago
- Join subcellular Visium HD bins into cells☆103Updated 2 weeks ago
- This repository is an exploratory resource to accelerate opensource analysis of CosMx® Spatial Molecular Imager (SMI) data. Contained her…☆67Updated 2 weeks ago
- ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method …☆84Updated 4 years ago
- Direct estimation of mean and covariance from single cell RNA seq experiments☆109Updated last month
- ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method …☆82Updated 2 months ago
- ☆48Updated 3 weeks ago
- Significance analysis for clustering single-cell RNA-sequencing data☆116Updated 8 months ago
- Image Mass Cytometry analysis pipeline☆25Updated last month
- AnnData interoperability in R☆78Updated this week
- Probabilistic cell segmentation for in situ spatial transcriptomics☆90Updated last week
- ☆37Updated last year
- BANKSY: spatial clustering☆111Updated 2 months ago
- ☆40Updated 6 months ago
- Code for reproducing the analysis in Gavish et al. "The transcriptional hallmarks of intra-tumor heterogeneity across a thousand tumors".☆112Updated 8 months ago
- Image processing software for CODEX: driftcompensation, deconvolution, uploading and segmentation☆47Updated 3 years ago
- Clone Calling from Visium Spatial Transcriptomics of Cancer samples☆70Updated 2 years ago
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆60Updated 11 months ago
- Convert Seurat objects to 10x Genomics Loupe files.☆123Updated 2 weeks ago
- Methods for decontamination of single cell data☆45Updated 3 months ago
- ☆31Updated 2 weeks ago
- R implementation of MULTI-seq sample classification workflow☆62Updated last year
- Repository for ENACT pipeline for end-to-end analysis of Visium HD data☆48Updated 3 weeks ago
- Identification of persistent local patterns in spatial omics data☆10Updated 3 weeks ago
- A Python package for the identification, characterization and comparison of spatial clusters from spatial -omics data.☆121Updated last week
- R package for pathway analysis in scRNA-seq data☆73Updated 9 months ago