SPAdes

SPAdes is an assembly toolkit consisting of several pipelines. It takes paired-end, mate-pairs, and unpaired reads as input. It then outputs several files that contain everything from the scaffolds to the assembly graph. By default, the thread count is 16.

tip

Several other tools load with this module. Review additional available tools using the command below:

report_subtools.sh spades

For additional information and examples, please see the SPAdes documentation.

ml biocontainers spades
spades.py --help

Parallel Capabilities: Multithreading options supported.