Difference between revisions of "Talk:Catalog"
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*Being able to enter parameter values into a new table
 
*Being able to enter parameter values into a new table
 
*Copy and rename functionality for column sets
 
*Copy and rename functionality for column sets
−
*Computer-generated parameter values
+
*Auto-translation to amino acid sequence for protein tags and modifiers
−
**See [[Talk:Protein coding sequences]] and [[Talk:Protein tags and modifiers]] for more details; Note that these computer generated values ought to be able to be overwritten by a human.
+
*An [[/RBS strength calculator|RBS strength calculator]] should be available on RBS and coding sequence pages.
−
**Auto-translation to amino acid sequence for protein tags and modifiers
+
*Auto-detection of direction of protein coding sequences based on sequence
−
**An [[/RBS strength calculator|RBS strength calculator]] should be available on RBS and coding sequence pages.
+
*Auto-detection as to whether a protein coding sequence has a start and stop codon and therefore is complete, N-terminal half, C-terminal half or a domain; as part of this the start and stop codons could be automatically annotated in the feature list
−
**Auto-detection of direction of protein coding sequences based on sequence
+
−
**Auto-detection as to whether a protein coding sequence has a start and stop codon and therefore is complete, N-terminal half, C-terminal half or a domain; as part of this the start and stop codons could be automatically annotated in the feature list
+
 
*Support for devices - allowing devices to be across multiple DNA fragments and with human-specified inputs and outputs
 
*Support for devices - allowing devices to be across multiple DNA fragments and with human-specified inputs and outputs
 
*Sites for transcriptional regulators should be [[/Transciptional regulator site identification|automatically identified]] for all promoters (and maybe other parts), add any identified sites as features to the promoters.
 
*Sites for transcriptional regulators should be [[/Transciptional regulator site identification|automatically identified]] for all promoters (and maybe other parts), add any identified sites as features to the promoters.

Revision as of 14:27, 22 January 2009

Software tools

Just the start of a list -

  • Tool for marking parts to be included or not included in the distribution
    • This might simply just be an excel spreadsheet initially of every part, how often it is used, QC info, summed size of all part pages etc.
  • Being able to enter parameter values into a new table
  • Copy and rename functionality for column sets
  • Auto-translation to amino acid sequence for protein tags and modifiers
  • An RBS strength calculator should be available on RBS and coding sequence pages.
  • Auto-detection of direction of protein coding sequences based on sequence
  • Auto-detection as to whether a protein coding sequence has a start and stop codon and therefore is complete, N-terminal half, C-terminal half or a domain; as part of this the start and stop codons could be automatically annotated in the feature list
  • Support for devices - allowing devices to be across multiple DNA fragments and with human-specified inputs and outputs
  • Sites for transcriptional regulators should be automatically identified for all promoters (and maybe other parts), add any identified sites as features to the promoters.
  • Auto-detection of the swissprot and kegg database references for protein coding regions
  • Secondary structure predictor that can show a graphic of the predicted secondary structure for a part.
    • This should be done for all protein generators and terminators
  • A method for importing promoters (and other parts) from ecocyc (and other similar databases).