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timknut / geno_imputation

Documentation and code base for the Geno/Roslin imputation project
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Illumina TOP alleles #9

Open timknut opened 8 years ago

timknut commented 8 years ago

When the LAB exports illumina genotypes, they usually export them in the TOP-strand format. Our pipeline expects this.

However, some of the data can be in another format,

Check

Download the annotation from snpCHIMP with the TOP-alleles, and compare for the illumina files.

Unoqualsiasi commented 8 years ago

I checked all the nordic files with the script i made and the response is 'TOP FORMAT'. The other files are TOP since in the final report there is the reference 'TOP' in the final report file but i think it would be better to ask to the lab.....just in case

Paolo