I need to assemble raw reads from a project that already has been published. The metagenome was sequenced with 454, but the files are only present in fastq format.
Is there an assembler which is up-to-date which can assemble long 454 reads with this quality profile? Can UDBA or Megahit deal with that?
Or does anyone have different recommendations?
Thank you for your help.
I thought (though I may well be wrong) that Velvet or SOAP was originally developed for 454 sequencing.