wiki:DataSet
close Warning: Can't synchronize with repository "(default)" (/mykopat/svn/repos/scata does not appear to be a Subversion repository.). Look in the Trac log for more information.

Dataset upload

Some important things to keep in mind while uploading data:

  • Scata will reverese-complement sequences in order to make sure that the 5' primer is found in the 5' end
  • If you give both 5' and 3' primer, any sequence where one of the primers cannot be found will be discarded
  • Scata does not yet understand degenrations in the priming sites. If you have degenerated bases, please lower the matching threshold to account for this, as N, R, Y etc does not match any base.
  • Scata takes priming site sequences, not the primer sequence.
  • Make sure you understand your Quality scores, and adjust the parameters accordingly. The defaults should work ok with new 454 data.
Last modified 10 years ago Last modified on Jul 2, 2011, 10:33:47 PM