Truthset NA12878 T2T/Pangenome for benchmarking? · Biostar

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Truthset NA12878 T2T/Pangenome for benchmarking?

I've been looking for days but haven't been able to find data for this. I'm looking for a publicly available VCF that I can use as a truthset to compare variant calls for T2T/Pangenome. I saw MARBL has this but for the hg002 sample, but we only have the NA12878 (hg001) sample and it would take too much time to order the hg002 one.

Does anyone know where I could find a publicly available truthset file for T2T/pangenome?

t2t benchmarking pangenome vcf alignment

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updated 6 months ago by Arup Ghosh

• written 7 months ago by smokestack •

The following article may have generated the NA12878 T2T truth set.

https://www.nature.com/articles/s41592-025-02750-y#MOESM4:~:text=Chm13%2Dbased%20truth%20set

Browse the datasets: https://42basepairs.com/browse/s3/platinum-pedigree-data

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written 6 months ago by Arup Ghosh

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