An R framework for choosing clustering parameters in scRNA-seq analysis pipelines
☆39Jun 12, 2020Updated 6 years ago
Alternatives and similar repositories for chooseR
Users that are interested in chooseR are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- MultiK is a data-driven tool that objectively assesses the optimal number(s) of clusters based on the concept of consensus clustering via…☆27Aug 15, 2023Updated 3 years ago
- ☆10Sep 2, 2024Updated 2 years ago
- Cell age determination by scATAC-seq and bulk-ATAC-seq☆33Jan 30, 2026Updated 9 months ago
- Classification of Single cells by Transfer Learning☆12Oct 11, 2025Updated last year
- Calibrated clustering via knockoffs for single-cell genomics☆11Feb 13, 2025Updated last year
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- SONAR is the algorithm of cell-type deconvolution for spatial transcriptomics☆10May 11, 2026Updated 5 months ago
- fast hierarchical clustering for large-scale single-cell data☆11Jul 11, 2021Updated 5 years ago
- Single-cell RNA-seq data-based inference of multilayer inter- and intra-cellular signaling networks☆35Aug 16, 2021Updated 5 years ago
- Ordering gene-expression and functional events in single-cell experiments☆33Jul 6, 2026Updated 4 months ago
- Single Cell Analysis Operations☆18Jun 24, 2026Updated 4 months ago
- ☆14Mar 20, 2021Updated 5 years ago
- A tissue-specific single-cell biological age model☆14Jul 26, 2023Updated 3 years ago
- ☆12May 14, 2024Updated 2 years ago
- R package to infer biological activities from omics data using a collection of methods.☆314Oct 26, 2026Updated last week
- AI Agents on DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- Single-cell RNA-seq analysis from "Single cell transcriptomics reveals spatial and temporal dynamics of gene expression in the developing…☆27May 12, 2020Updated 6 years ago
- Interactive design and validation of antibody panels using single-cell atlases | https://cytomarker.ai☆17Oct 8, 2026Updated 3 weeks ago
- ☆11Jul 8, 2024Updated 2 years ago
- Identifying external communication signals using single-cell transcriptomics data☆22Jun 10, 2024Updated 2 years ago
- Individual level Differential Expression Analysis for Single cells☆28Dec 24, 2022Updated 3 years ago
- Deconvolution of spatial transcriptomics at single-cell resolution☆23Mar 25, 2026Updated 7 months ago
- Multi-slice Spatial Transcriptome Domain Analysis.☆12Dec 13, 2024Updated last year
- Core utilities for single-cell RNA-seq☆13Jun 16, 2026Updated 4 months ago
- R package for SIGMA, a clusterability measure for scRNA-seq data☆13Dec 15, 2021Updated 4 years ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- MRtree R implementation☆14Mar 1, 2023Updated 3 years ago
- Accurate, deep, fast, and fully-automated scRNA-seq cell-type annotation☆15Jan 21, 2025Updated last year
- Pan-Cancer Single Cell Classifier☆87May 30, 2024Updated 2 years ago
- SUmmarizing Multiple Enrichment analysis Results☆10Nov 14, 2024Updated last year
- ☆78Aug 21, 2023Updated 3 years ago
- ☆15Nov 2, 2017Updated 9 years ago
- Various utility functions for Seurat v5 single-cell analysis☆71Sep 21, 2026Updated last month
- Efficiently compute robust markers across single-cell datasets☆13Apr 21, 2021Updated 5 years ago
- Single Cell Oriented Reconstruction of PANDA-based Individually Optimized Networks☆28Oct 15, 2026Updated 3 weeks ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomics data with nonuniform cellular dens…☆102Apr 30, 2026Updated 6 months ago
- Multi-sample Unified Discriminant ANalysis☆75Apr 11, 2023Updated 3 years ago
- scGSVA: Perform GSVA for single cell RNA seq☆88Sep 5, 2026Updated 2 months ago
- Data available at: https://www.dropbox.com/sh/jh4s57kgbb0rnxe/AABoMK466cGc1OKsOuFN10wca?dl=0 and https://nyulangone-my.sharepoint.com//g/…☆30Aug 17, 2022Updated 4 years ago
- Visualize the results of cell-cell communication analysis☆26Jan 21, 2023Updated 3 years ago
- Spatially-aware quality control for spatial transcriptomics☆17Oct 16, 2026Updated 3 weeks ago
- CHOIR : Clustering Hierarchy Optimization by Iterative Random forests (www.CHOIRclustering.com)☆93Apr 15, 2026Updated 6 months ago