Set a limit in gigabytes (e.g., -m 8 for 8GB).
Inside your output directory (likely specified in your workshop instructions), you will find two main results: contigs.fasta and scaffolds.fasta . SPADES-Day2-pc.rar
Running the spades.py command on the cleaned "Day 2" datasets. Set a limit in gigabytes (e
It reduces the number of mismatches and short indels (insertions/deletions) by running a post-processing tool called MismatchCorrector. Set a limit in gigabytes (e.g.
If you are following a standard microbial genomics curriculum, your "Day 2" workflow typically involves:
Using tools like Trimmomatic to clean your raw data before assembly.