Targeted capture sequencing data

Question

[MAPK]

I am working on whole genome and exome genotyping data and also need to do some analysis with the targeted genotyping data. Is there any database I can go to download these targeted capture data sets ? I have tried Illumina website, but all they have is information on targeted capture method and don't have any output data (sample data) from targeted capture.

Answer 1

[rbagnall]

Do you mean you want to download fastq data from Illumina exome enrichments, and from Illumina targeted sequencing, such as the TruSight capture panels?

If you register for a BaseSpace account than you can access an assortment of different datasets:

BaseSpace Public datasets

If you want the resulting genotypes (in vcf format?) then I'm not sure.

[MAPK]

I need the resultant genotypes in vcf format. Thanks

[igor]

Then you can run them through BaseSpace analysis pipelines.

[MAPK]

@Igor Thanks, Do you know exactly which pipeline I can run in this case?