Free GUI based sortware for off instrument SMRT analysis

[vl80]

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

[TiborNagy]

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

[GenoMax]

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.

[vl80]

Thanks a lot. Unfortunately, the not tech savy group.

[GenoMax]

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