Fig. 2

Schematics of example extension inputs and contents. a Files for extension sbx_metaspades_example, which uses MetaSPAdes to assemble reads from quality-controlled fastq.gz files. sbx_metaspades_example.rules lists procedure necessary to generate assembly results from a pair of decontaminated, quality-controlled FASTQ input files. requirements.txt lists the software requirements for the package to be installed through Conda. b Files contained within the sbx_report extension: requirements.txt lists the software requirements for the package to be installed through Conda; sbx_report.rules contains the code for the rule as above, final_report.Rmd is a R markdown script that generates and visualizes the report, example.html is an example report, and README.md provides instructions for installing and running the extension. Sunbeam inputs required for each extension are shown as colored shapes above the extensions