Trio aware phasing
In this project, we will establish an infrastructure and perform phasing of the sequence data.
Status: under development
Contributors: Yurii, Lennart, TBA
Timeline: January 2011 – April 2011 (phased genotypes using already existing solutions) - July 2011 (phased genotypes using own solution) - December 2011 (release of software)
Resources: PostDoc at 1.0 fte + BI/programmer at 0.5 fte (ideally, the same as the one on MendelianQcPipeline) + experienced supervisor at 0.1 fte
Other projects depending on this: imputations / ImputationPipeline (hard), population genetics (LD, hard), functional variants / SnpAnnotationPipeline (final catalogue, soft), novel variants discovery (final catalogue, soft).
Aims and Deliverables
- In concert with developments from MendelianQcPipeline, improve quality of sequence genotypes data by fixing errors and filling in missing values
- Higher-quality, more complete and phased genotypes
A principal idea of what questions should be addressed (without saying how) is summarized in TrioAwarePhasingPipelineIdea.
Automated workflow (will be) provided in TrioAwarePhasingPipelineWorkflow? page.