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Hi there,
I am trying to run SAIGE on a binary trait from the UKBB and I wanted to test a small subset of SNPs before running all chromosomes. I am running SAIGE_0.29.3.
I fitted the model using…
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Hello Paul & Hiroko again,
flh1 has ~90% of the CPUs used on 14 day old processes now all run by mysql. Any thoughts on why?
Thanks!
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To report a bug, fill in the information below.
For support and feature requests, please use the discussion forum: http://discuss.hail.is/
--------------------------------------------------------…
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To report a bug, fill in the information below.
For support and feature requests, please use the discussion forum: http://discuss.hail.is/
--------------------------------------------------------…
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Might want to automatically change them to numbers (though that might not be the best way to handle this?)
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Currently cannot calculate the covariate (e.g. PCA/MDS).
Currently should be of fairly low priority
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Currently in order to provide information (phenotype, gender, pedigree, cohort, sequencing protocol, etc.) about the samples in your vcf you need to resort to an external file (PED or FAM for example,…
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Computing GP is very expensive and most people probably don't need it by default
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Something that turned up when chatting to @pkalbers, but that I think might be more generally useful. (I have a nasty feeling this might be very difficult, so perhaps there is a better alternative?). …