FASTX Toolkit


From FASTX Documentation: The FASTX-Toolkit is a collection of command line tools for Short-Reads FASTA/FASTQ files preprocessing.


  • 0.0.13

Authorized Users

  • CIRCE account holders
  • SC account holders


  • CIRCE cluster
  • SC cluster


FASTX Toolkit requires the following module file to run:

  • apps/fastx/0.0.13

Running FASTX Toolkit on CIRCE/SC

The FASTX Toolkit user guide is essential to understanding the application and making the most of it. The guide and this page should help you to get started with your simulations. Please refer to the Documentation section for a link to the guide.

  • Note on CIRCE: Make sure to run your jobs from your $WORK directory!
  • Note: Scripts are provided as examples only. Your SLURM executables, tools, and options may vary from the example below. For help on submitting jobs to the queue, see our SLURM User’s Guide.


Home Page, User Guides, and Manuals

Reporting Bugs

Report bugs with FASTX Toolkit to the IT Help Desk: