Structural Variation with 454 Reads
Does anyone out there know of a pipeline for looking at structural variation (inversions, chromosome scale translocations, etc) using 454 reads? I can imagine how I might fake it by splitting my reads up into faked paired ends and running them through algorithms intended for Illumina reads, but that doesn't really seem like the right way to do it.
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We are currently trying to split all partially mapped reads and blatting these. Then we look for overlap of many reads showing the same mapping pattern. -
Hi wjeck,
This week 454 released a new version of our mapper/assembler software that provides for structural variation detection functionality. Other new features include the ability of handling up to human-sized genomes for assembly as well as de novo transcriptome assembly capability.
For more information you can follow up with your local Roche representative.
Best regards,
JasonTechnical Product Manager
454 Life Sciences, A Roche CompanyComment
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