Spatial Single Cell transcriptomic library
☆23Jan 15, 2026Updated 9 months ago
Alternatives and similar repositories for sc3D
Users that are interested in sc3D are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- A plugin to visualise 3D spatial single cell omics☆20Oct 22, 2025Updated last year
- ☆10Mar 6, 2025Updated last year
- ☆18Aug 31, 2017Updated 9 years ago
- Tools for analyzing Slide-seq data☆32Oct 30, 2023Updated 3 years ago
- ☆16Apr 4, 2023Updated 3 years ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- Reworked clustering metrics for assessing performance in imbalanced settings☆19Jun 3, 2024Updated 2 years ago
- ☆29Dec 25, 2023Updated 2 years ago
- ☆19Mar 8, 2023Updated 3 years ago
- Analysis repository for "Droplet-based combinatorial indexing for massive scale single-cell epigenomics"☆11Sep 30, 2019Updated 7 years ago
- The scripts used for the analyses in TOME project☆26Nov 28, 2025Updated 11 months ago
- Non-parametric density inference for single-cell analysis.☆77Sep 24, 2026Updated last month
- Developmental Spatiotemporal Optimal Transport☆15Mar 19, 2025Updated last year
- ☆17Dec 4, 2025Updated 10 months ago
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.☆93Mar 20, 2025Updated last year
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- PhyloVelo, Phylogeny-based transcriptomic velocity of single cells☆45Jun 12, 2026Updated 4 months ago
- The R package "sarlacc" contains a pipeline to analyse nanopore sequencing data. It trims adapter sequences, retrieves optional UMI's, cl…☆15Feb 27, 2019Updated 7 years ago
- ☆11Feb 18, 2019Updated 7 years ago
- Codebase for PRESCIENT (Potential eneRgy undErlying Single Cell gradIENTs) for generative modeling of single-cell time-series.☆57Jan 20, 2025Updated last year
- Vignettes for Cardinal3 paper☆11Feb 20, 2023Updated 3 years ago
- A set of files to do genomics analysis on python☆19Jun 5, 2025Updated last year
- A toolking for cell type hierarchies: marker selection & consistent classification☆22Nov 26, 2023Updated 2 years ago
- This repository aims to serve as an index of the work described at Salmen & De Jonghe et. al 2022☆25Feb 21, 2022Updated 4 years ago
- STRIDE (Spatial TRanscRIptomics DEconvolution by topic modelling) is a cell-type deconvolution tool for spatial transcriptomics by using …☆28Jul 13, 2026Updated 3 months ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Interactive visualization and sharing of cell tracking data in the browser☆49Updated this week
- ☆16May 23, 2022Updated 4 years ago
- RNA-velocity informed embeddings for visualizing cellular trajectories☆45Sep 5, 2022Updated 4 years ago
- Data analysis for the moscot-framework project☆27Feb 27, 2026Updated 8 months ago
- Cross-platform data for sequencing-based spatial transcriptomics benchmarking☆13Oct 26, 2023Updated 3 years ago
- Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace☆42Jan 11, 2025Updated last year
- A count based method for detecting doublets from single nucleus ATAC-seq (snATAC-seq) data.☆35Jan 3, 2023Updated 3 years ago
- Suite of analysis tools for spatial total RNA-sequencing☆13Aug 10, 2023Updated 3 years ago
- Pseudotime analysis for time-series single-cell sequencing and imaging data☆14Mar 13, 2026Updated 7 months ago
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Axolotl Regenerative Telencehpalon Interpretation via Spatiotemporal Transcriptomic Atlas☆21Jul 3, 2022Updated 4 years ago
- ☆12Aug 6, 2024Updated 2 years ago
- ☆22Aug 2, 2023Updated 3 years ago
- Finding surprising needles (=features) in haystacks (=single cell/spatial genomics data).☆13Aug 26, 2026Updated 2 months ago
- Updated scripts and pipelines for processing GESTALT data at single-cell resolution☆20May 22, 2021Updated 5 years ago
- Snakemake pipeline for plate scATAC-seq processing☆26Dec 7, 2023Updated 2 years ago
- Combined clonality and transcriptome scRNAseq clustering method☆11Dec 3, 2022Updated 3 years ago