"Orchestrating Spatial Transcriptomics Analysis with Bioconductor" (OSTA) online book
☆109Mar 11, 2026Updated last month
Alternatives and similar repositories for OSTA
Users that are interested in OSTA are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆72May 28, 2025Updated 10 months ago
- Read in Xenium, CosMx, Vizgen, STARmap PLUS, seqFISH data as Spatial or SingleCell Experiment object.☆17Sep 19, 2025Updated 6 months ago
- Brendan's skeleton scRNAseq workflow using scran, Seurat, and scClustViz☆11Apr 22, 2020Updated 5 years ago
- Convert your single-cell/spatial analyses to parallel HPC/cloud workflows just using pipes in R☆17Dec 18, 2024Updated last year
- ☆63Dec 27, 2023Updated 2 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Multi-omic Integration and Analysis of cBioPortal and TCGA data with MultiAssayExperiment☆24Jul 2, 2025Updated 9 months ago
- A package that performs cell type annotations on single cell resolution of spatial transcriptomics data, find the niche interactions and …☆14Dec 5, 2025Updated 4 months ago
- BANKSY: spatial clustering☆140Oct 15, 2025Updated 6 months ago
- R package for normalisation of spatial transcriptomics data☆18Jan 21, 2026Updated 2 months ago
- tools and notes for spatial omics☆351Feb 26, 2025Updated last year
- LIANA: a LIgand-receptor ANalysis frAmework☆239Aug 7, 2024Updated last year
- ☆28Jan 25, 2022Updated 4 years ago
- ☆53Jan 15, 2026Updated 3 months ago
- Scripts used for the Differential NicheNet analyses in the Liver Atlas paper Guilliams et al., Cell 2022☆10Jan 12, 2022Updated 4 years ago
- Wordpress hosting with auto-scaling - Free Trial • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- List of papers on deconvolution of cell types in bulk RNA-seq based on single-cell signatures☆18Aug 28, 2020Updated 5 years ago
- An introduction to OME-Zarr for big bioimaging data☆25Apr 6, 2026Updated last week
- Querying cellular states and programs by learning representations of gene sets☆16Nov 2, 2025Updated 5 months ago
- Segmentation-free Analysis of In Situ Capture data☆14Apr 6, 2026Updated last week
- Static plotting for spatialdata☆78Apr 8, 2026Updated last week
- ☆33May 4, 2025Updated 11 months ago
- ☆11Feb 24, 2026Updated last month
- A Toolbox for Spatial Transcriptomics Analysis☆166May 6, 2025Updated 11 months ago
- R package for nucleotide conversion sequencing data analysis☆17Jan 13, 2026Updated 3 months ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Code for the spatialLIBD R/Bioconductor package and shiny app☆112Mar 27, 2026Updated 2 weeks ago
- From geospatial to spatial -omics☆102Mar 18, 2026Updated 3 weeks ago
- A computational tool for identification of 3D multi-modal spatial neighborhoods☆15Aug 1, 2025Updated 8 months ago
- MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…☆185Aug 12, 2025Updated 8 months ago
- Multi-sample multi-group scRNA-seq analysis tools☆223Mar 25, 2026Updated 3 weeks ago
- Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression☆30Dec 3, 2024Updated last year
- Bayesian model for clustering and enhancing the resolution of spatial gene expression experiments.☆175Jan 8, 2026Updated 3 months ago
- Scripts from the GBM cellular states paper☆21Feb 24, 2021Updated 5 years ago
- A Quarto blog for Bioconductor community☆16Apr 9, 2026Updated last week
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- A repository of case studies using ProjecTILs☆15Jul 26, 2024Updated last year
- Extension of SpatialExperiment with sf☆57Apr 7, 2026Updated last week
- Python API and Jupyter widget for Vitessce☆65Apr 4, 2026Updated last week
- Conversion between scRNA-seq objects☆204Jan 12, 2026Updated 3 months ago
- Methods to discover gene programs on single-cell data☆180Apr 1, 2026Updated 2 weeks ago
- Spatial transcriptomics of heart tissue☆108Oct 7, 2023Updated 2 years ago
- ☆12Jun 11, 2023Updated 2 years ago