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Subsample via normalization? #63

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BobLiterman opened this issue Mar 28, 2018 · 1 comment
Open

Subsample via normalization? #63

BobLiterman opened this issue Mar 28, 2018 · 1 comment
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@BobLiterman

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@BobLiterman
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Future thought: Instead of subsampling reads randomly, perhaps we could be assembling better genomes and getting more representative mapping if we instead:

  1. Get raw reads for X species
  2. Trim etc.
  3. For 10X Mapping Data: Cat and normalize reads from each species by kmer to ~10X coverage (bbamp can do this)
  4. For Genome Data: Subsample normalized reads to create genome data.
@BobLiterman BobLiterman self-assigned this Mar 28, 2018
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Check out other aligners, specifically with functionality at degenerate bases.

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