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radmeth is too slow #19

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guilhermesena1 opened this issue Jul 8, 2022 · 0 comments
Open

radmeth is too slow #19

guilhermesena1 opened this issue Jul 8, 2022 · 0 comments

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@guilhermesena1
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It takes several hours in the human genome to test for all 28M CpGs on a two-case test with 10 replicates each. According to perf, half of the time in the code is spent on __ieee754_log_fma, which I think has to do with log-likelihoods within GSL. We may be able to optimize these.
@andrewdavidsmith andrewdavidsmith transferred this issue from smithlabcode/methpipe Oct 16, 2022
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@guilhermesena1