Difference between revisions of "Project Priority List"
From GcatWiki
(→Genome Assembly) |
(→Genome Assembly) |
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#*Lower coverage... using 1/2 reads | #*Lower coverage... using 1/2 reads | ||
#*Not cleaning reads | #*Not cleaning reads | ||
| − | #Tutorial | + | #Tutorial - include walkthrough and explain scaffolding as well |
#Genome comparison | #Genome comparison | ||
#*dotplot to visually compare contigs - program automatically rearranges all contigs of one to get as close to diagonal line as possible | #*dotplot to visually compare contigs - program automatically rearranges all contigs of one to get as close to diagonal line as possible | ||
Revision as of 16:21, 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
- Lower coverage... using 1/2 reads
- Not cleaning reads
- Tutorial - include walkthrough and explain scaffolding as well
- 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 addition to website
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.
