STORMSeq

Welcome to the Scalable Tools for Open-source Read Mapping (STORM) Seq package. Create a private, personal read-mapping environment in the cloud. Minimal technical expertise necessary.

Learn how to use »

What is STORMSeq?

  • STORMSeq is a cloud-based pipeline for processing short read data (as one might get from the Illumina or 454 platforms) to variant data.
  • It is easy-to-use and implemented using only graphical interfaces on the Amazon cloud.
  • It implements a number of alignment packages including BWA and SNAP, the GATK cleaning pipeline, and variant calling using GATK or samtools (coming soon!).
  • The software itself is free and open-source. The only cost to the user is the compute time and storage on Amazon EC2.
  • How much does it cost to run?

  • The software itself is free. The user pays for time on the Amazon cloud.
  • This cost depends on the amount of data to process and the parameters set by the user.
  • As a rough estimate:
    • A full genome (30X coverage) will cost about $25-35 to process (mapping, cleaning, and variant calling).
    • A full exome (80X coverage) will cost about $2-3 to process (mapping, cleaning, and variant calling).
    • However, these prices may vary depending on a number of factors, including parameters of the data and the current cost of Amazon machines.

    Where can I find STORMSeq?

  • Instructions on how to set up and use the system on Amazon EC2 can be found here.
  • The source code is available on github.