scRNASequest: an ecosystem of scRNA-seq analysis, visualization and publishing. BMC Genomics 24, 228 (2023).
☆27Feb 4, 2026Updated last month
Alternatives and similar repositories for scRNAsequest
Users that are interested in scRNAsequest are comparing it to the libraries listed below
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 10 months ago
- 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…☆160Mar 10, 2026Updated last week
- 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☆40Jan 10, 2026Updated 2 months ago
- Python library for plotting Cellphonedb results. Ported from ktplots R package.☆57Updated this week
- Quickomics: exploring omics data in an intuitive, interactive and informative manner. Bioinformatics. 2021 Apr 26:btab255.☆42Mar 4, 2026Updated 2 weeks ago
- 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☆49Jan 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.☆17Sep 19, 2025Updated 6 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☆10Mar 5, 2026Updated 2 weeks ago
- R package for metabolic enzyme enrichment anaylsis☆13Oct 24, 2025Updated 4 months ago
- A comprehensive pipeline for Ribo-seq data analysis☆11Jun 27, 2025Updated 8 months ago
- Parse ArchR arrow files to anndata h5ad☆16Dec 14, 2023Updated 2 years ago
- Pan-Cancer Single Cell Classifier☆85May 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 10 months ago
- bioInfograph: an online tool to design and display multi-panel scientific figure interactively☆11Mar 2, 2022Updated 4 years ago
- ☆31Jun 10, 2025Updated 9 months ago
- single-cell analysis workflows for double phosphoramidite barcode and UMI Correction (scCOLOR-seq)☆13Jul 13, 2023Updated 2 years ago
- workshop website on readthedocs☆21Sep 26, 2025Updated 5 months ago
- ggideogram is a ggplot2 extension package for drawing chromosome diagrams☆17Nov 29, 2024Updated last year
- chloroplast genome assembly using long reads data☆15Jul 8, 2025Updated 8 months ago
- ☆14Mar 13, 2018Updated 8 years ago
- R API and htmlwidget for Vitessce☆44Aug 13, 2025Updated 7 months ago
- R functions for automation of biomarker discovery based on processing downstream of large LC-MS datasets from any peak picking software☆10May 17, 2017Updated 8 years ago
- Automatic annotation of single-cell RNA-seq data from the literature☆46Jul 20, 2025Updated 8 months ago
- ☆12Mar 22, 2023Updated 2 years ago
- Identification and targeting of treatment resistant progenitor populations in T-cell Acute Lymphoblastic Leukemia☆14May 16, 2024Updated last year
- Code accompanying the manuscript "Tissue Schematics map the specialization of immune tissue motifs and their appropriation by tumors"☆11Mar 3, 2023Updated 3 years ago
- B-cell and T-cell Adaptive Immune Receptor Repertoire (AIRR) sequencing analysis pipeline using the Immcantation framework☆75Mar 13, 2026Updated last week
- ☆21Dec 20, 2024Updated last year
- ☆38Jul 26, 2016Updated 9 years ago
- Detect hierarchical structures in cell-cell communications☆16Jan 26, 2025Updated last year
- Interoperability between SpatialData and the Xenium Explorer☆25Jul 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