scRNASequest: an ecosystem of scRNA-seq analysis, visualization and publishing. BMC Genomics 24, 228 (2023).
☆28Feb 4, 2026Updated 3 months ago
Alternatives and similar repositories for scRNAsequest
Users that are interested in scRNAsequest are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- CompBioAgent: An LLM-powered agent for single-cell RNA-seq data exploration. https://doi.org/10.1101/2025.03.17.643771☆16Apr 25, 2025Updated last year
- Cluster Identity Predictor (R package implementation)☆21Mar 8, 2022Updated 4 years ago
- Enables cellxgene to generate violin, stacked violin, stacked bar, heatmap, volcano, embedding, dot, track, density, 2D density, sankey a…☆161Mar 23, 2026Updated last month
- Selecting the optimal trajectory inference based on a given dataset and user input 🔮☆19Jun 29, 2020Updated 5 years ago
- ScaleSC: A superfast and scalable single cell RNA-seq data analysis pipeline powered by GPU. https://doi.org/10.1093/bioadv/vbaf167☆41Jan 10, 2026Updated 4 months ago
- Simple, predictable pricing with DigitalOcean hosting • AdAlways know what you'll pay with monthly caps and flat pricing. Enterprise-grade infrastructure trusted by 600k+ customers.
- Python library for plotting Cellphonedb results. Ported from ktplots R package.☆57May 11, 2026Updated last week
- Quickomics: exploring omics data in an intuitive, interactive and informative manner. Bioinformatics. 2021 Apr 26:btab255.☆43May 7, 2026Updated last week
- Projecting RNA measurements onto single cell atlases to extract cell type-specific expression profiles using scProjection☆16Aug 28, 2023Updated 2 years ago
- bioInfograph: an online tool to design and display multi-panel scientific figure interactively☆12Feb 15, 2022Updated 4 years ago
- Workflow for single-cell RNA-seq analysis using Seurat☆53Jan 14, 2024Updated 2 years ago
- A comprehensive pipeline for RNAseq data analysis☆22Aug 31, 2024Updated last year
- Read in Xenium, CosMx, Vizgen, STARmap PLUS, seqFISH data as Spatial or SingleCell Experiment object.☆19Sep 19, 2025Updated 8 months ago
- public production version of sequin to share with the public☆11Jan 6, 2025Updated last year
- Copenhagen brain entropy toolbox - a set of matlab tools to compute entropy measures in neuroimaging data☆13May 12, 2026Updated last week
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- This is a phylogeny workflow for batch submission to HPC cluster built with Slurm queue manager☆11Mar 19, 2024Updated 2 years ago
- R package for metabolic enzyme enrichment anaylsis☆13Oct 24, 2025Updated 6 months ago
- A comprehensive pipeline for Ribo-seq data analysis☆11Jun 27, 2025Updated 10 months ago
- Parse ArchR arrow files to anndata h5ad☆16Dec 14, 2023Updated 2 years ago
- Pan-Cancer Single Cell Classifier☆86May 30, 2024Updated last year
- Snakemake pipeline for benchmarking cell-type deconvolution methods and deconvolving real bulk RNA-seq data with the use of scRNA-seq dat…☆15Apr 28, 2025Updated last year
- bioInfograph: an online tool to design and display multi-panel scientific figure interactively☆11Mar 2, 2022Updated 4 years ago
- ☆32Apr 3, 2026Updated last month
- single-cell analysis workflows for double phosphoramidite barcode and UMI Correction (scCOLOR-seq)☆13Jul 13, 2023Updated 2 years ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- workshop website on readthedocs☆21May 11, 2026Updated last week
- ☆14Mar 13, 2018Updated 8 years ago
- Single cell Nanopore sequencing data for Genotype and Phenotype☆58May 15, 2025Updated last year
- R API and htmlwidget for Vitessce☆45Aug 13, 2025Updated 9 months ago
- ☆12Mar 22, 2023Updated 3 years ago
- Identification and targeting of treatment resistant progenitor populations in T-cell Acute Lymphoblastic Leukemia☆15May 16, 2024Updated 2 years ago
- ☆22Dec 20, 2024Updated last year
- B-cell and T-cell Adaptive Immune Receptor Repertoire (AIRR) sequencing analysis pipeline using the Immcantation framework☆77Updated this week
- ☆38Jul 26, 2016Updated 9 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.
- Automatic annotation of single-cell RNA-seq data from the literature☆47Jul 20, 2025Updated 9 months ago
- Detect hierarchical structures in cell-cell communications☆16Jan 26, 2025Updated last year
- Interoperability between SpatialData and the Xenium Explorer☆26Jul 31, 2024Updated last year
- An R package for ECM molecule annotation, classification, and analysis☆14Sep 20, 2024Updated last year
- Evaluation of cell-cell interaction methods by integrating single-cell RNA sequencing data with spatial information☆23Sep 30, 2022Updated 3 years ago
- A package to help convert different single-cell data formats to each other☆465Feb 20, 2026Updated 2 months ago
- Code accompanying the manuscript "Tissue Schematics map the specialization of immune tissue motifs and their appropriation by tumors"☆12Mar 3, 2023Updated 3 years ago