corbinq

Thanks very much for the bug report. The discrepancy in LD estimates appears to have been due to a bug processing unphased genotypes for variants with MAF > 50%. Also,...

Also: To calculate the same r2 statistic using PLINK, use --r2 rather than --ld. Running the PLINK command below should produce output equivalent to emeraLD: `plink-1.9 --vcf test.vcf.gz --r2 --ld-snps...

Hi, Thanks for contacting us about this. I'm not sure if it's the only issue here, but unfortunately emeraLD does not currently support missing genotypes. Genotype imputation (e.g., using https://imputationserver.sph.umich.edu...

Hi Lars, Adding support for Savvy is definitely something I'd like to do in the near future. Savvy is super efficient in terms of storage, access, and querying. Unfortunately timing...

Hi Claire, Thanks for your question! Interchromosomal LD isn't currently supported, but it wouldn't be difficult to enable. I'd be happy to send an update once we've added that option...