Test-drive the GATK tools and Best Practices pipelines on Terra


Check out this blog post to learn how you can get started with GATK and try out the pipelines in preconfigured workspaces (with a user-friendly interface!) without having to install anything.

Hi,Can sambamba replace SortSamSpark for chromosome sorting? Will it affect accuracy?

Hi,Can sambamba replace SortSamSpark for chromosome sorting? Will it affect accuracy?

Answers

  • shleeshlee CambridgeMember, Broadie ✭✭✭✭✭

    Hi @sailor9527,

    We're not familiar with external tools like sambamba. Given an appropriate Spark cluster setup, my understanding is that GATK Spark tools should outperform their non-Spark counterparts. The scientific results should be equivalent between the versions.

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