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
Alternatives and similar repositories for ScaleSC
Users that are interested in ScaleSC 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
- ☆20Jan 10, 2025Updated last year
- Convert your single-cell/spatial analyses to parallel HPC/cloud workflows just using pipes in R☆17Dec 18, 2024Updated last year
- SCISSORS builds upon the Louvain graph-based clustering in Seurat by optimizing parameter selection when reclustering cell groups, with a…☆14Nov 8, 2023Updated 2 years ago
- Scaling Single Cell Analysis to Millions of Cells☆268Jan 13, 2026Updated 2 months ago
- Large language model Mistral for DNA☆21Sep 12, 2025Updated 6 months ago
- Scaling up spatial transcriptomics for large-sized tissues: uncovering cellular-level tissue architecture beyond conventional platforms☆47Oct 22, 2025Updated 4 months ago
- Tidy R query API for the harmonised and curated CELLxGENE single-cell atlas.☆93Dec 18, 2024Updated last year
- CLI to automate Nextflow pipeline testing☆12Dec 15, 2025Updated 3 months ago
- Serves a web interface and RESTful API for reference genome assets.☆12Feb 25, 2026Updated 3 weeks ago
- Repository for storing prototype functionality implementations for the BKP☆47Updated this week
- BANKSY: Spatial Clustering Algorithm that Unifies Cell-Typing and Tissue Domain Segmentation. Python package for spatial transcriptomics …☆75Nov 13, 2025Updated 4 months ago
- AnnData interoperability in R☆163Updated this week
- ☆16Jan 12, 2026Updated 2 months ago
- Python playground for cell-type-specific biology☆12Jan 20, 2026Updated 2 months ago
- xOmicsShiny: an R Shiny application for cross-omics data analysis and pathway mapping, Bioinformatics Advances, Volume 5, Issue 1, 2025, …☆38Feb 6, 2026Updated last month
- A user-friendly R pipeline for biomarker discovery in single-cell transcriptomics☆13Jan 9, 2026Updated 2 months ago
- Perturbational analysis by causality-aware generative model for single-cell RNA-sequencing data☆19Dec 16, 2025Updated 3 months ago
- Biwhitened PCA☆14Updated this week
- Skip the peaks and expose RNA-binding in CLIP data☆10Mar 12, 2026Updated last week
- CIViC is an open access, open source, community-driven web resource for Clinical Interpretation of Variants in Cancer☆30Updated this week
- requirements, examples, and tests for expression matrix file formats☆22Sep 18, 2018Updated 7 years ago
- pathway based data integration and visualization☆47Mar 28, 2025Updated 11 months ago
- ☆12Aug 30, 2025Updated 6 months ago
- A repository for benchmarking spatial deconvolution and mapping tools☆36May 13, 2025Updated 10 months ago
- Clinical interpretation of somatic mutations in cancer☆50Feb 20, 2025Updated last year
- A mapper for 10x-flex single cell sequencing reads with fixed abstract geometries☆41Mar 3, 2026Updated 2 weeks ago
- Bayesian mixed-effect model to test differences in cell type proportions from single-cell data, in R☆122Feb 23, 2026Updated 3 weeks ago
- Convert TCR gene names☆15Dec 26, 2025Updated 2 months ago
- Space- and time-optimal algorithms for large single-cell expression matrices, with a focus on single-cell CRISPR screens.☆12Apr 13, 2024Updated last year
- The `multiGSEA` R package was designed to run a robust GSEA-based pathway enrichment for multiple omics layers.☆21Oct 30, 2025Updated 4 months ago
- A GenePattern module for running the ssGSEA method☆15Mar 3, 2025Updated last year
- Single-cell analysis methods in Rust☆30Nov 4, 2025Updated 4 months ago
- bioInfograph: an online tool to design and display multi-panel scientific figure interactively☆11Mar 2, 2022Updated 4 years ago
- Splice junction analysis and filtering from BAM files☆41Mar 31, 2022Updated 3 years ago
- Repel Visually Similar Colors for Colorblind Users (CRAN)☆10Jul 21, 2025Updated 7 months ago
- Github Repository for multiOmics Integration project involving genomics, epigenomics and transcriptomics☆13Aug 7, 2020Updated 5 years ago
- Trans-association between HLA and TCR-CDR3☆19Mar 29, 2023Updated 2 years ago
- Code for the identification step for CSI-Microbes☆31Nov 25, 2024Updated last year