Page Comparison

Video recording (sorry, I missed the first minute!). I tried inserting it directly into Confluence but it seems to may be a bit glitchy.

Also can be found on YouTube (private link) where it should work better: https://youtu.be/1LUottSwY8Y

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Bodo - Would be good to have standardized metrics to compare technology. He calls:

• Assay success rate, and what filters we used for the SNP selection

• % genotyping calls

• % heterozygous calls

• Mismatches between technical replicates

• Mismatches between different genotyping platforms, GBS vs DarTag

• Checking if the data makes biological sense, if we see clear blocks of sensible recombination  frequencies in segregating populations.

Main positives and negatives

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Catherine: do you have the script to convert in vcf? because it really depends of the experiment.Or can we receive a vcf from DArT?

Moira: For the technical control, does 384 samples really translate to 383?

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Liz: Is there a cost to update the panel every year? Recommend revalidating every time the panel is updated as new assays can cause other assays to fail.

Liz: what is the approx. cost of shipping DNA between Intertek (Sweden or Australia) and DArT that would be added to the invoice?

Moctar - getting good call rate with average 80 reads per sample locus. What would be the costs to achive achieve this? Standard genotyping under contract is around 10 calls for potato?

Liz: will other technologies be considered for medium density platforms under EiB M3?