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Commits on Oct 6, 2011
Commits on Jul 15, 2011
  1. Consolidate genetic code information, and standardize on strings inst…

    …ead of keywords for amino acid codes
    christophermaier committed Jul 15, 2011
  2. Much cleanup

    christophermaier committed Jul 15, 2011
  3. Comments on peptide records

    Christopher Maier committed with christophermaier Apr 11, 2011
  4. Glutton now digests DNA, RNA, and Protein

    Christopher Maier committed with christophermaier Apr 10, 2011
  5. Add sequence-type function to determine if a sequence is DNA, RNA, or…

    … protein
    Christopher Maier committed with christophermaier Apr 9, 2011
  6. Use new peptide records

    Christopher Maier committed with christophermaier Apr 9, 2011
  7. Add some testing goodness

    Christopher Maier committed with christophermaier Apr 9, 2011
  8. First stab at new peptide records

    Christopher Maier committed with christophermaier Apr 9, 2011
  9. Some cleanup

    Christopher Maier committed with christophermaier Apr 3, 2011
  10. If we're not representing codons as arrays anymore, we don't need to …

    …turn them into seqs to match them to amino acids.
    Christopher Maier committed with christophermaier Apr 3, 2011
  11. Pulled out 'get-codon' function for readability

    Christopher Maier committed with christophermaier Apr 3, 2011
  12. Digest all 6 frames at once

    Christopher Maier committed with christophermaier Apr 3, 2011
  13. Moved ecoli.fasta file to proper test-resources folder

    Christopher Maier committed with christophermaier Apr 3, 2011
  14. complement-nucleotides and reverse-complement functions work explicit…

    …ly on Strings
    Christopher Maier committed with christophermaier Apr 3, 2011
  15. Instead of doing one frame, do three (all on a strand)

    Christopher Maier committed with christophermaier Apr 2, 2011
  16. Instead of stepping forward nucleotide-by-nucleotide, jump forward wh…

    …ole codons at a time
    Christopher Maier committed with christophermaier Apr 2, 2011
  17. Arrays don't make much difference

    Christopher Maier committed with christophermaier Apr 2, 2011
  18. Comparing character arrays as sequences instead of strings gives a bi…

    …g speedup
    Christopher Maier committed with christophermaier Apr 2, 2011
  19. Hmmm... transients don't seem to save much

    Christopher Maier committed with christophermaier Apr 2, 2011
  20. First stab at speeding this thing up. NOT DONE YET!

    Christopher Maier committed with christophermaier Apr 2, 2011
Commits on Jul 14, 2011
Commits on Apr 1, 2011
  1. Merge branch 'feature/tests' into develop

    Christopher Maier committed Apr 1, 2011
  2. Not guaranteeing that they're valid, but the tests actually run now (…

    …using clojure.test)
    Christopher Maier committed Apr 1, 2011
  3. Should have been mass-tolerance, not mass-threshold

    Christopher Maier committed Apr 1, 2011
  4. Removed references to outdated contrib functions, replacing them with…

    … local reimplementations where appropriate
    Christopher Maier committed Apr 1, 2011