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DeepConsensus 0.2.0
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@pichuan pichuan released this 18 Jan 23:38
· 2 commits to r0.2 since this release
v0.2.0
f1413ee

Change Log

  • Substantial (>10x) speed increase relative to v0.1.
  • DeepConsensus now supports GPU execution. In our tests, using a NVIDIA V100 GPU is ~3.3x faster than CPU alone.
  • Reduced installation complexity by removing Nucleus and Apache Beam dependencies. Added support for newer TensorFlow versions.
  • CPU and GPU pip packages are now available alongside corresponding Docker images.
  • A more user-friendly command-line interface has been added and can be invoked using deepconsensus.
  • A simplified one-step solution for running DeepConsensus has been developed and can be invoked using deepconsensus run.
  • Small improvements to accuracy by better mapping repetitive subreads with actc, increasing Q30 yield by 31.3 % relative to pbccs, compared to 30.6% for DeepConsensus v0.1.

Thanks to Armin Töpfer for actc support and Jeremy Schmutz for evaluations and feedback.

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