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  • Free GUI based sortware for off instrument SMRT analysis

    Are there any free GUI based software or cloud platform for basic analysis of small genomes (2x10^6bp) (de novo assembly, alignment, epigenetic modification ID) for Pacbio RS II based data that can be used off instrument?

    Thanks in advance

  • #2
    Short answer is no.
    Long answer: NCBI Genome Workbench is not Pacbio specific. CLC/Geneious are not free.

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    • #3
      PacBio software (SMRTPortal) is available for free here: http://www.pacb.com/devnet/

      You would need help from a systems administrator (if you are not savvy) to install on a server/cluster or a large (16GB or more) Amazon instance to run the software.

      Secondary analysis is always done off-instrument. You would need access to the raw data (*.h5, metadata.xml) files for your samples.
      Last edited by GenoMax; 05-28-2014, 07:25 AM.

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      • #4
        Thanks a lot. Unfortunately, the not tech savy group.

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        • #5
          You may be interested in using the Amazon AWS version (if that is a possible option). Directions are here: https://github.com/PacificBioscience...MRT-Portal-AMI

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