The tutorials walk you through a simple use case of Clara Parabricks, giving you a brief introduction to how it works.

You will start by downloading some sample data consisting of:

  • reference file (Homo_sapiens_assembly38.fasta) and its index

  • A 'known indels' file and its index

  • Two FASTQ files

  • Associated index files

The tutorials then walk you through the following steps:

  • Alignment (FASTA + FASTQ ==> BAM)

  • Variant calling (BAM ==> VCF)

  • Computation of BAM and VCF metrics

The tutorials are meant to be simple and straightforward, and to only cover a single, specific use case. You should be able to copy and paste the commands into a terminal window and get the same results as shown. The How-Tos cover more general problem solving using Clara Parabricks.