ARMOR

ARMOR (Analysis of RNA-seq using Modular and Reproducible workflows) is a software tool to facilitate end-to-end RNA sequencing (RNA-seq) data analysis. Addressing the complexities and fragmentations in RNA-seq data analysis, ARMOR offers a streamlined and cohesive workflow that covers the entire spectrum of analysis tasks—starting from raw read files through quality checks, alignment, and quantification to differential expression testing, geneset analysis, and browser-based data exploration.

Implemented using the Snakemake workflow management system, ARMOR stands out for its modularity, transparency, and flexibility. It harnesses the power of conda environments to manage software dependencies and leverages Bioconductor objects to ensure compatibility and seamless integration with a wide array of R packages. This design philosophy enables ARMOR to facilitate downstream analysis and extend its utility across various research projects.

ARMOR's workflow is readily deployable; users can easily set it up by cloning its GitHub repository, substituting the supplied input and reference files with their own, and editing a configuration file according to their project's requirements. The tools and resources included within ARMOR have been carefully chosen for their reliability and performance. Yet, the system's modular architecture allows researchers to integrate alternative tools should their analysis require it.