Kalanchoe: Difference between revisions
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= Data = | = Data = | ||
* 300M genome | |||
* ~5x 454 from a variety of library sizes | * ~5x 454 from a variety of library sizes | ||
* ~20x illumina (Illumina scale qualities). | * ~20x illumina (Illumina scale qualities). | ||
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== Illumina == | == Illumina == | ||
= Assembly = | = Assembly = | ||
Revision as of 02:07, 14 February 2011
Data
- 300M genome
- ~5x 454 from a variety of library sizes
- ~20x illumina (Illumina scale qualities).
- Location:
/fs/szattic-asmg7/Kalenchoe_genome/
454
Illumina
Assembly
Blogs
assemble the illumina lane with SOAPdenovo and then assemble with newbler the 454 lanes and the resulting contig of SOAP2. SOAP uses a de bruijn graph data structure that is well suited for short illumina reads but it is not enough flexible in order to handle 454 reads. Newbler, instead, is based on Overlap Layout Approach that work well with long reads
- CABOG ... throws a lot of errors on our architecture for some reason