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v0.3.2

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@denisbeslic denisbeslic released this 10 Jun 10:04
· 16 commits to main since this release
v0.3.2
12d8e48

Added

  • Multiple reads simulation: Added the ability to simulate multiple reads in read-mode, see #17. Corresponding README updates included.
  • Added a new optional --bps parameter
  • Expanded RNA support: Added RNA profiles RNA-004 and RNA-002 to the list of available simulation profiles. Extended preprocessing and training pipelines to handle RNA data. (Note: models are not available yet)

Changed

  • Default noise parameter updated: The default value for noise-std was increased from 1.0 to 2.0, resulting in better performance on DNA datasets (see issues #17 and #18).
  • Added detailed descriptions in the README covering training workflows and preprocessing steps for better usability.
  • Introduced a warning when the average read length is shorter than the reference sequence.
  • Seed parameter handling: When the seed parameter is not set, seq2squiggle now automatically selects a random seed to ensure variability in simulations (see #18).
  • Library upgrades: Updated PyTorch and other dependencies to their latest versions for improved stability and performance.

What's Changed

Full Changelog: v0.3.1...v0.3.2

Contributors

denisbeslic
Assets 2
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