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3 hours ago by

I have to perform what amounts to basically a correlation calculation on dosages from every row of what is equivalent to a 300M varaint X 30K sample VCF.

One thing I am wondering is if this would be faster to write a C plugin and work with BCFs or to Use Python and read in chunks and convert to a numpy matrix before performing my calculation. I am fairly sure the Python approach is going to take a really long time, butI don't know if C would be any faster. Does anyone have any suggestions of how to approach this with performance in mind. I would greatly appreciate any tips. Thank you.


modified 3 hours ago

3 hours ago


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