ONT metagenomics

This is an attempt to have a monitor for incoming ONT data.

Scripts

• receive.sh monitors a working directory and performs an analysis whenever data comes in
  • ontMetagenomics.sh runs initial metagenomics analysis like Kraken2
  • compile.sh compiles initial analyses from ontMetagenomics.sh.

Working directory

receive.sh creates a working directory with subfolders

• inbox is where reads are manually added
• log is where log files go
• outbox is where reads are moved to
• compiled is where compiled results go to from compile.sh.