STREAM: Single-cell Trajectories Reconstruction, Exploration And Mapping of single-cell data
β182Dec 18, 2021Updated 4 years ago
Alternatives and similar repositories for STREAM
Users that are interested in STREAM are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Inferring, interpreting and visualising trajectories using a streamlined set of packages π¦β185Jun 24, 2021Updated 4 years ago
- Single cell interactive plotting toolsβ24Jun 12, 2020Updated 5 years ago
- Single cell trajectory detectionβ309Apr 21, 2026Updated last week
- Single-cell Transcriptome and Regulome Analysis Pipelineβ309Mar 6, 2023Updated 3 years ago
- R package for the joint analysis of multiple single-cell RNA-seq datasetsβ224Updated this week
- Wordpress hosting with auto-scaling - Free Trial Offer β’ AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- CellRank: dynamics from multi-view single-cell dataβ443Updated this week
- Analysis Pipeline for Single Cell ATAC-seqβ322Apr 27, 2023Updated 3 years ago
- Analysis of cell-cell communication at single-cell resolutionβ107Sep 10, 2024Updated last year
- Functions for identifying and characterizing continuous developmental trajectories in single-cell data.β328Apr 23, 2024Updated 2 years ago
- Signature Analysis and Visualization for Single-Cell RNA-seqβ177Jun 10, 2024Updated last year
- Framework for clustering, phenotyping, pseudotiming and inferring gene regulatory networks from single cell dataβ109Jul 3, 2023Updated 2 years ago
- R toolkit for inference, visualization and analysis of cell-cell communication from single-cell dataβ778Jan 6, 2024Updated 2 years ago
- CONICS: COpy-Number analysis In single-Cell RNA-Sequencingβ76Feb 27, 2023Updated 3 years ago
- R markdown notebooks for the Tabula Muris network analysis in Iacono et al. (2019)β12Jun 30, 2021Updated 4 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer β’ AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- R package to quantify and remove cell free mRNAs from droplet based scRNA-seq dataβ323Nov 1, 2022Updated 3 years ago
- A package to help convert different single-cell data formats to each otherβ465Feb 20, 2026Updated 2 months ago
- NicheNet: predict active ligand-target links between interacting cellsβ639Nov 12, 2025Updated 5 months ago
- This repository contains the CellTag data analysis R package to support clone calling and lineage reconstruction.β21Oct 19, 2022Updated 3 years ago
- Publication Page for MPAL Paper 2019β85Jun 25, 2020Updated 5 years ago
- URD - Reconstruction of Branching Developmental Trajectoriesβ127Jun 29, 2021Updated 4 years ago
- An R package to construct Elastic Principal Graphsβ24Nov 29, 2019Updated 6 years ago
- Episcanpy: Epigenomics Single Cell Analysis in Pythonβ151Dec 5, 2024Updated last year
- β43Jan 9, 2021Updated 5 years ago
- 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.
- An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.β171Jan 26, 2024Updated 2 years ago
- R package implementation of Milo for testing for differential abundance in KNN graphsβ428Apr 23, 2026Updated last week
- Inclusive model of expression dynamics with conventional or metabolic labeling based scRNA-seq / multiomics, vector field reconstruction β¦β490Apr 23, 2026Updated last week
- Benchmarking computational single cell ATAC-seq methodsβ184Nov 30, 2020Updated 5 years ago
- R package for analyzing and interactively exploring large-scale single-cell RNA-seq datasetsβ252Apr 1, 2026Updated 3 weeks ago
- RNA Velocity generalized through dynamical modelingβ497Feb 25, 2026Updated 2 months ago
- Interpretation of cell states using reference single-cell mapsβ316Dec 19, 2025Updated 4 months ago
- Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.β3,718Apr 13, 2026Updated 2 weeks ago
- pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) whichβ¦β600Jun 26, 2025Updated 10 months ago
- Serverless GPU API endpoints on Runpod - Get Bonus Credits β’ AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- Assessing the purity of single cell populationβ146Jun 3, 2022Updated 3 years ago
- zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIsβ293Jul 12, 2024Updated last year
- Community-provided extensions to Seuratβ361Feb 17, 2026Updated 2 months ago
- Fast, sensitive and accurate integration of single-cell data with Harmonyβ642Apr 21, 2026Updated last week
- SingleR: Single-cell RNA-seq cell types Recognition (legacy version)β336Jul 28, 2020Updated 5 years ago
- Neural Crest Fate Decisionsβ11Jul 9, 2019Updated 6 years ago
- A toolkit for single-cell immune profilingβ367Updated this week