{"repo":"epigen/dea_limma","free":true,"listed":false,"github":"https://github.com/epigen/dea_limma","clone":"git clone https://github.com/epigen/dea_limma.git","description":"A Snakemake workflow and MrBiomics module for performing and visualizing differential analyses of NGS data powered by the R package limma.","language":"R","stars":64,"topics":["atac-seq","bioinformatics","biomedical-data-science","chip-seq","differential-expression-analysis","limma","limma-trend","limma-voom","rna-seq","snakemake"],"license":"MIT","category":"workflow-automation","readme_excerpt":"Differential Analysis & Visualization Snakemake Workflow Using limma A Snakemake 8 workflow for performing and visualizing differential (expression, accessibility, binding,...) analyses of NGS data (e.g., RNA-seq, ATAC-seq, ChIP-seq, scRNA-seq,...) powered by the R package limma . [!NOTE] This workflow adheres to the module specifications of MrBiomics, an effort to augment research by modularizing (biomedical) data science. For more details, instructions, and modules check out the project's repository. ⭐️ Star and share modules you find valuable 📤 - help others discover them, and guide our focus for future work! [!IMPORTANT] If you use this workflow in a publication, please don't forget to give credit to the authors by citing it using this DOI 10.5281/zenodo.7808516. 🖋️ Authors - Stephan Reichl - Lukas Folkman - Raphael Bednarsky - Christoph Bock 💿 Software This project wouldn't be possible without the following software and their dependencies: Software Reference (DOI) :------------: :-----------------------------------------------: edgeR https://doi.org/10.1093/bioinformatics/btp616 EnhancedVolcano https://doi.org/10.18129/B9.bioc.EnhancedVolcano ggplot2 https://ggplot2.tidyverse.org/ patchwork https://CRAN.R-project.org/package=patchwork pheatmap https://cran.r-project.org/package=pheatmap limma https://doi.org/10.1093/nar/gkv007 Snakemake https://doi.org/10.12688/f1000research.29032.2 🔬 Methods This is a template for the Methods section of a scientific publication and ","default_branch":null,"files":null,"tree":[],"storefront":"/r/epigen","claimed":false,"request_supported":{"post":"https://gitbuyer.com/r/epigen/dea_limma/request-supported","requests":0},"note":"indexed from public GitHub; nothing is for sale on this page. Clone it from GitHub. Paid listings live at /search."}