STREAM: Single-cell Trajectories Reconstruction, Exploration And Mapping of single-cell data
☆184Dec 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 🦕☆188Jun 24, 2021Updated 5 years ago
- Single cell interactive plotting tools☆24Jun 12, 2020Updated 6 years ago
- Single cell trajectory detection☆331Jul 15, 2026Updated 3 weeks ago
- Single-cell Transcriptome and Regulome Analysis Pipeline☆312Mar 6, 2023Updated 3 years ago
- CellRank: dynamics from multi-view single-cell data☆454Aug 3, 2026Updated last week
- 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.
- R package for the joint analysis of multiple single-cell RNA-seq datasets☆230Jul 2, 2026Updated last month
- Analysis Pipeline for Single Cell ATAC-seq☆322Apr 27, 2023Updated 3 years ago
- Analysis of cell-cell communication at single-cell resolution☆107Sep 10, 2024Updated last year
- Functions for identifying and characterizing continuous developmental trajectories in single-cell data.☆343Apr 23, 2024Updated 2 years ago
- Signature Analysis and Visualization for Single-Cell RNA-seq☆183Jun 10, 2024Updated 2 years ago
- An R package to construct Elastic Principal Graphs☆24Nov 29, 2019Updated 6 years ago
- Framework for clustering, phenotyping, pseudotiming and inferring gene regulatory networks from single cell data☆110Jul 3, 2023Updated 3 years ago
- CONICS: COpy-Number analysis In single-Cell RNA-Sequencing☆78Feb 27, 2023Updated 3 years ago
- R markdown notebooks for the Tabula Muris network analysis in Iacono et al. (2019)☆12Jun 30, 2021Updated 5 years ago
- 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.
- R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data☆336Nov 1, 2022Updated 3 years ago
- A package to help convert different single-cell data formats to each other☆470Feb 20, 2026Updated 5 months ago
- This repository contains the CellTag data analysis R package to support clone calling and lineage reconstruction.☆23Oct 19, 2022Updated 3 years ago
- NicheNet: predict active ligand-target links between interacting cells☆670Jun 1, 2026Updated 2 months ago
- Episcanpy: Epigenomics Single Cell Analysis in Python☆152Dec 5, 2024Updated last year
- Publication Page for MPAL Paper 2019☆86Jun 25, 2020Updated 6 years ago
- URD - Reconstruction of Branching Developmental Trajectories☆128Jun 29, 2021Updated 5 years ago
- ☆46Jan 9, 2021Updated 5 years ago
- Benchmarking computational single cell ATAC-seq methods☆185Nov 30, 2020Updated 5 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.
- Inclusive model of expression dynamics with conventional or metabolic labeling based scRNA-seq / multiomics, vector field reconstruction …☆506Jul 26, 2026Updated 2 weeks ago
- An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.☆178Jan 26, 2024Updated 2 years ago
- R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data☆793Jan 6, 2024Updated 2 years ago
- R package for analyzing and interactively exploring large-scale single-cell RNA-seq datasets☆257Jun 28, 2026Updated last month
- R package implementation of Milo for testing for differential abundance in KNN graphs☆442May 11, 2026Updated 2 months ago
- Fast, sensitive and accurate integration of single-cell data with Harmony☆667Jun 5, 2026Updated 2 months ago
- RNA Velocity generalized through dynamical modeling☆506Feb 25, 2026Updated 5 months ago
- Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.☆3,828Aug 1, 2026Updated last week
- Interpretation of cell states using reference single-cell maps☆323Dec 19, 2025Updated 7 months ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…☆631Jun 26, 2025Updated last year
- Assessing the purity of single cell population☆154Jun 3, 2022Updated 4 years ago
- zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs☆297Jul 12, 2024Updated 2 years ago
- Community-provided extensions to Seurat☆370Jun 29, 2026Updated last month
- SingleR: Single-cell RNA-seq cell types Recognition (legacy version)☆347Jul 28, 2020Updated 6 years ago
- A toolkit for single-cell immune profiling☆374Jul 9, 2026Updated last month
- Neural Crest Fate Decisions☆11Jul 9, 2019Updated 7 years ago