A pipeline for droplet-based single-cell RNA-seq and spot-based spatial transcriptomics data secondary analysis implemented in the drake Make-like pipeline toolkit for the R language.
☆15Aug 27, 2025Updated 7 months ago
Alternatives and similar repositories for scdrake
Users that are interested in scdrake are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Scripts to help get fastqs☆19Feb 24, 2026Updated last month
- Snakemake pipeline that works with the scIB package to benchmark data integration methods.☆82Jan 23, 2025Updated last year
- scRNA multimodal analysis pipeline utilised for large dataset processing - capable in handeling scRNA, scATAC, Hastag Multiplexed samples☆17Feb 8, 2026Updated last month
- Code for a multimodal atlas of healthy and injured cell states and niches in the human kidney☆25Mar 7, 2024Updated 2 years ago
- Development repository for R package 'PLSDAbatch ' hosted on Bioconductor.☆14Jan 6, 2026Updated 2 months ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- CUDA implementation of RTXX algorithm for multiplication of matrix and its transpose X^T X☆19Jun 9, 2025Updated 9 months ago
- Please consider using/contributing to https://github.com/nf-core/scdownstream☆26Jun 13, 2024Updated last year
- Building on material from Introduction to Single Cell RNA-Seq, this workshop aims to cover advanced topics, including TCR and trajectory …☆15Apr 12, 2023Updated 2 years ago
- A single-cell RNA-seq pipeline☆26Apr 12, 2023Updated 2 years ago
- ☆10May 14, 2025Updated 10 months ago
- Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq☆91Updated this week
- Multi-modal single cell analysis pipelines☆62Dec 11, 2025Updated 3 months ago
- collections of tools for cytometry data analysis☆14Jul 9, 2020Updated 5 years ago
- Single-cell analytic toolbox that offers modular workflows for multi-level cellular annotation and user-friendly analysis reports☆11May 25, 2023Updated 2 years ago
- Wordpress hosting with auto-scaling on Cloudways • AdFully Managed hosting built for WordPress-powered businesses that need reliable, auto-scalable hosting. Cloudways SafeUpdates now available.
- The Singularity Community Catalog of Singularity* recipe files.☆11Oct 27, 2025Updated 5 months ago
- Fast, modular and reproducible generation of publication quality scientific figures and movies with only a few lines of code.☆17Apr 9, 2025Updated 11 months ago
- Spatial Tumor Microenvironment (SpatialTME) database is a comprehensive database designed for characterize tumor spatial microenvironment…☆13Dec 4, 2023Updated 2 years ago
- Image converter from multiple formats to PDF - useful script for scientific writing e.g. in LaTeX☆10Oct 15, 2017Updated 8 years ago
- an empirical Bayesian framework for mutation detection from cancer genome sequencing data☆31Apr 5, 2016Updated 9 years ago
- ☆15Oct 9, 2020Updated 5 years ago
- Analaysis for the batch correction paper☆12Apr 26, 2025Updated 11 months ago
- A repository for benchmarking spatial deconvolution and mapping tools☆36May 13, 2025Updated 10 months ago
- ☆11Sep 7, 2023Updated 2 years ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- ☆13Feb 17, 2022Updated 4 years ago
- Significance analysis for clustering single-cell RNA-sequencing data☆123Sep 7, 2024Updated last year
- NGS perl modules☆10Updated this week
- aCcelerated Alignment-FrEe sequence analysis☆13May 8, 2018Updated 7 years ago
- Analysis and Visualisation of Hydrogen/Deuterium Exchange Mass Spectrometry Data☆11Sep 3, 2025Updated 6 months ago
- A manually curated lists of software, publications and other resources related to the analysis of HDX-MS data.☆11Dec 15, 2025Updated 3 months ago
- Visualizing Somatic Alterations of 10X Spatial Transcriptomics Data☆14Nov 7, 2024Updated last year
- ☆11Mar 2, 2021Updated 5 years ago
- Semestral project for the subject Methods of computational inteligence @ fit.cvut.cz☆22Jan 31, 2017Updated 9 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting with the flexibility to host WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Cloudways by DigitalOcean.
- Quantitative mass spectrometry workflow. Currently supports proteomics experiments with complex experimental designs for DDA-LFQ, DDA-Iso…☆38May 6, 2024Updated last year
- R package implementing a simple method for CD8 T cell epitope prediction by MHC class I binding for HLA and other MHC-I molecules.☆15Sep 21, 2020Updated 5 years ago
- Biol 4800: a course on reproducible research using R and some other fun bits, taught by Tad Dallas at Louisiana State University.☆21Dec 12, 2020Updated 5 years ago
- ☆12Mar 22, 2024Updated 2 years ago
- ☆14Mar 18, 2022Updated 4 years ago
- Free, open source crypto trading bot☆24Dec 7, 2024Updated last year
- ☆92Aug 29, 2025Updated 7 months ago