Genome Query 0.1 (deadline: 17 March)
- Search algorithms:
KMP
Suffix arrays (Victor)
K-mers (Andrew)
- Annotations are used to get more precised location:
search in genes
protein id
exons & introns (Kate)
- UI:
on the fly error checking (Alexey K.)
better layout for info/show/count/find results (Vlad O.)
improve help layout: see current right side help (Natalya K.)
show sample queries on startup page (Alexey K.)
- Other:
- ability to stop long running tasks (Vlad R.)
preprocessing, sequence condensed structure (Vlad R.)
Backlog
Search algorithms:
- Compressed Suffix arrays (Andrew)
- Inexact search
BLAST (Vlad O.)
Annotations are used to get more precised location: (Kate) in progress
- repeats
- locuses
Parser
inexact search syntax (Alexey A.)
regular expressions (Alexey A.)
parsing on client side
sytax for search by shift before/after gene
TODO:
- Use issue tracker!
- on the fly syntax check
client side with better error recovery
- task estimation time based on algorithm used
- better instant input validation
- think about result layout
- HISTORY of queries
Legend
- Must have feature
- Nice to have feature
- Under Investigation
- In Progress
- Feature Implemented