Spades-day2-pc.rar May 2026

Match this to your CPU's physical cores to speed up the process (e.g., -t 4 ). 3. Focus on Scaffolds vs. Contigs

When running SPAdes (the executable often found in such packages as spades.py ), the --careful option is a critical feature for small genome projects (like bacteria, which are common in workshops). SPADES-Day2-pc.rar

Inside your output directory (likely specified in your workshop instructions), you will find two main results: contigs.fasta and scaffolds.fasta . Match this to your CPU's physical cores to

Running the spades.py command on the cleaned "Day 2" datasets. your "Day 2" workflow typically involves:

If you are following a standard microbial genomics curriculum, your "Day 2" workflow typically involves: