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Add tutorial explaining the insides of scan1snps() #156

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kbroman opened this issue Apr 16, 2020 · 0 comments
Open

Add tutorial explaining the insides of scan1snps() #156

kbroman opened this issue Apr 16, 2020 · 0 comments

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@kbroman
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kbroman commented Apr 16, 2020

Once scan1snps() was written, we simplified the user guide, pulling out all the discussion of the internal details, as they're mostly not necessary anymore. But it would be good to add a tutorial that fully explains them:

  • connecting to a snp database to get snp information
  • calculating strain distribution patterns if not present
  • indexing the SNPs
  • using genoprob_to_snpprob()
  • calling scan1() with those results
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