Development of containerized pipelines for the reproducible analysis of amplicon sequence-, shotgun metagenomic- and metatranscriptomic data

Development of 3 independent containerized pipelines to analyse shotgun metagenomic-, amplicon sequencing- and metatranscriptomic data. The pipelines are meant to improve reproducibility in analysing these data. Containers were developed using Singularity for efficient use on HPC environments. The pipelines were developed using Nextflow. The pipelines were tested with their respective data on a local server Aither for the server environment and the Centre of High Performance Computing (CHPC) for the cluster environment.
These files are table outputs from running the amplicon sequence pipeline on the cluster and server.