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  • Analyse short reads using blast2go

    Hi all,

    Is it possible to analyse short reads in order to mining information?
    For example, I would like to use blast2go to analyse my short reads but I'mnot sure the right approach. My idea is I perform the contigs from the reads using velvet. Then from the contigs I analyse using blast2go. Is it the right approach?
    Anyone can guide me here?

    Thanks!

  • #2
    Yep, sounds interesting if you're looking for novel functions in, for example, a set of contigs from a bacterial accessory genome. I am not sure if Blast2go will be fast enough for large datasets. When I tried it a great number of Blast results were interrupted / went missing.

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