The Nextflow nf-core/metatdenovo pipeline for reproducible annotation of metatranscriptomes, and more.

ABSTRACT: Metatranscriptomics-the sequencing of community RNA-has become a popular tool in microbial ecology, proving useful for both in situ surveys and experiments. However, annotating raw sequence data remains challenging for many research groups with limited computational experience. Standardized and reproducible analyses are important to enhance transparency, comparability across studies, and long-term reproducibility. To simplify metatranscriptome processing for biologists, and to promote reproducible analyses, we introduce nf-core/metatdenovo, a Nextflow-based workflow. Nextflow pipelines run on different computing platforms, from standalone systems to high-performance computing clusters and cloud platforms (e.g., AWS, Google Cloud, Azure) and use container technology such as Do

SUBMITTER: Di Leo D 

PROVIDER: S-EPMC12684408 | biostudies-literature | 2025

REPOSITORIES: biostudies-literature