NVIDIA Parabricks v4.3.0

The tutorials walk you through a simple use case for NVIDIA Parabricks, giving a brief introduction of how it works. You will start by downloading some sample data:

  • A reference file (Homo_sapiens_assembly38.fasta) and its index

  • A 'known indels' file and its index

  • Two FASTQ files

  • Associated index files

  • One bam file for markdup

The tutorials then walk through the following steps:

  • Alignment (FASTA + FASTQ ==> BAM)

  • Variant calling (BAM ==> VCF)

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 Parabricks.

Steps in the Tutorial

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