Here’s a brief overview of what Sean has done with the Oly genome assembly front.


  • Assemble his BGI assembly and Platanus assembly? Confusing terms here; not sure what he means.
  • Failed due to 32-bit vs. 64-bit installation of MUMmer. He didn’t have the chance to re-compile MUMmer as 64-bit. However, a recent MUMmer announcement suggests that MUMmer can now handle genomes of unlimited size.
  • I believe he was planning on using (or was using?) GARM, which relies upon MUMmer and may also include a version of MUMmer (outdated version that led to Sean’s error message?).
  • Notebook entry




from Sam’s Notebook

Project Progress – Olympia Oyster Genome Assemblies by Sean Bennett
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