Difference between revisions of "Project Priority List"
From GcatWiki
(→Genome Assembly) |
(→Phages DB) |
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#Scaffolding | #Scaffolding | ||
− | ===Phages DB=== | + | ===Phages DB (2nd priority)=== |
+ | *Take 2 groups of phages and pull out patterns | ||
+ | **x % in group has 1 mobile element... | ||
+ | *Query based comparison | ||
+ | **Give me gene X, and return list of gene and what % in one cluster... ect. |
Revision as of 16:13, 13 June 2011
Genome Assembly
- Website modules that take in parameters and have a tutorial (probably want a few frames in webpage that can load individually)
- At the end with the contig you compare them and also discuss the next steps of scaffolding (be sure to highlight the importance of having linker sequences)
- Make the website to show changes in assembly based on changes in... kmer length
- Effect of using 1/2 reads -> lowering coverage
- Effect of not cleaning reads
- Tutorial
- Genome comparison
- dotplot to visually compare contigs - program automatically rearranges all contigs of one to get as close to diagonal line as possible
- Effect of OLC vs de Bruijn - too technical?
- Scaffolding
Phages DB (2nd priority)
- Take 2 groups of phages and pull out patterns
- x % in group has 1 mobile element...
- Query based comparison
- Give me gene X, and return list of gene and what % in one cluster... ect.