Assembly-stats

Introductions

Some assembly programs do not output any summary details regarding the assembly they produce. This program is useful in listing out various ket quality (or perhaps better said, completeness) statistics on the assembly. It is developed by the Sanger Pathogens team and is not particulary complicated having quite simple outputs, which are nonetheless very useful.

Usage

Quite simple, though you need to load the module first:

module load assembly-stats

And then

assembly-stats scaffolds.fasta

If scaffolds.fasta is your assembly file, which it probably will be, if you used SPAdes for your assembly. And as SPAdes does not summarise its assembly, this program is a good way to go.

Links

Homepage is here.