Difference between revisions of "Talk:Catalog"
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*Tool for marking parts to be included or not included in the distribution | *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. | **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 | ||
| + | *Automated parameter generation | ||
| + | **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. | ||
| + | **Auto-translation to amino acid sequence for protein tags and modifiers | ||
| + | **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 | ||
*An [[/RBS strength calculator|RBS strength calculator]] should be available on RBS and coding sequence pages. | *An [[/RBS strength calculator|RBS strength calculator]] should be available on RBS and coding sequence pages. | ||
| + | *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. | ||
| + | *Auto-detection of the swissprot and kegg database references for protein coding regions | ||
*[[/Secondary structure predictor|Secondary structure predictor]] that can show a graphic of the predicted secondary structure for a part. | *[[/Secondary structure predictor|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 | **This should be done for all protein generators and terminators | ||
*A method for importing promoters (and other parts) from ecocyc (and other similar databases). | *A method for importing promoters (and other parts) from ecocyc (and other similar databases). | ||
Revision as of 14:23, 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
- Automated parameter generation
- 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.
- Auto-translation to amino acid sequence for protein tags and modifiers
- 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
- An RBS strength calculator should be available on RBS and coding sequence pages.
- 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).