A repository for benchmarking spatial deconvolution and mapping tools
β36May 13, 2025Updated last year
Alternatives and similar repositories for spotless-benchmark
Users that are interested in spotless-benchmark are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- https://sparrow-pipeline.readthedocs.io/en/latest/β33Jun 26, 2026Updated last week
- Visualising data frames as funky heatmaps π, the Python implementationβ26Feb 6, 2025Updated last year
- CIARA (Cluster Independent Algorithm for the identification of markers of RAre cell types) is an R package that identifies potential marβ¦β17Jan 1, 2026Updated 6 months ago
- β22Jun 12, 2026Updated 3 weeks ago
- Batch Effect Correction of RNA-seq Data through Sample Distance Matrix Adjustmentβ18Jun 3, 2021Updated 5 years ago
- Deploy on Railway without the complexity - Free Credits Offer β’ AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- A library for the deconvolution of bulk cell samples using single-cell RNA expression data.β23Nov 3, 2021Updated 4 years ago
- Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpaceβ41Jan 11, 2025Updated last year
- Python package to interactively annotate histological images within a jupyter notebookβ18Oct 20, 2025Updated 8 months ago
- ESICCC: A systematic computational framework for evaluation, selection and integration of cell-cell communication inference methodsβ13Jan 10, 2024Updated 2 years ago
- β53Oct 9, 2025Updated 8 months ago
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteinsβ79Mar 28, 2026Updated 3 months ago
- R package for distinguishing cells from background barcodes in droplet-based single-cell RNA-seq dataβ12Apr 19, 2023Updated 3 years ago
- Code used for mouse single cell RNAseq testis atlasβ12Nov 28, 2020Updated 5 years ago
- NicheNet: predict active ligand-target links between interacting cellsβ662Jun 1, 2026Updated last month
- AI Agents on DigitalOcean Gradient AI Platform β’ AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- The complete FlowSOM package known from R, now available in Python!β32Updated this week
- UniverSC: a flexible cross-platform single-cell data processing pipelineβ49Feb 25, 2024Updated 2 years ago
- Harmony framework for connecting scRNA-seq data from discrete time pointsβ54Dec 1, 2025Updated 7 months ago
- AnnData interoperability in Rβ188Jun 23, 2026Updated last week
- β49Jan 28, 2026Updated 5 months ago
- β40Jun 24, 2025Updated last year
- Using self-organizing maps for visualization and interpretation of cytometry dataβ35Apr 10, 2026Updated 2 months ago
- inferring cell-cell communication from scRNA-seq of ligand-receptorβ88Oct 6, 2023Updated 2 years ago
- β29Sep 4, 2023Updated 2 years ago
- Managed Kubernetes at scale on DigitalOcean β’ AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Cell type purification by single-cell transcriptome-trained sortingβ16Jul 8, 2019Updated 6 years ago
- A tool for semi-automatic cell type classificationβ491May 22, 2026Updated last month
- β59Updated this week
- Infer Copy Number Alterations and Clonality in (Single-Cell) RNA-Seq Dataβ54Jan 12, 2024Updated 2 years ago
- β14Feb 21, 2023Updated 3 years ago
- Bioinformatic MCP server that wraps the most useful functions of the gget libraryβ29Oct 27, 2025Updated 8 months ago
- Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial β¦β467Jan 22, 2026Updated 5 months ago
- Biology-driven deep generative model for cell-type annotation in cytometry. Scyan is an interpretable model that also corrects batch-effeβ¦β46Jun 1, 2026Updated last month
- an integrative analysis tool for analysing large-scale single cell RNA-sequencing dataβ37Aug 7, 2023Updated 2 years ago
- Managed hosting for WordPress and PHP on Cloudways β’ AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- DIALOGUE is a dimensionality reduction method that uses cross-cell-type associations to identify multicellular programs (MCPs) and map thβ¦β122Jan 22, 2024Updated 2 years ago
- CiteFuse:β28Feb 7, 2023Updated 3 years ago
- Analysis of imbalanced data and its impacts in a scRNA-seq integration settingβ31Mar 7, 2025Updated last year
- cell type deconvolution for multi-condition bulk RNA-seq dataβ33Feb 28, 2022Updated 4 years ago
- β16Sep 8, 2024Updated last year
- methylR: a single shiny solution from sequencer data to pathway analysisβ12Oct 30, 2024Updated last year
- A pipeline for droplet-based single-cell RNA-seq and spot-based spatial transcriptomics data secondary analysis implemented in the drake β¦β17Aug 27, 2025Updated 10 months ago