Add a mimseq_flags option to the config file and use the --local-modomics flag by default to fix #1.
Use a Docker container built from a custom forked version of mimseq. This allows us to iterate faster so we don't have to wait on maintainers to merge our PRs when we fix bugs.
Use the newly upgraded singularity & snakemake modules on FRCE.
mimseq_flagsoption to the config file and use the--local-modomicsflag by default to fix #1.