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cfDNAlab 0.5.0

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@LudvigOlsen LudvigOlsen released this 19 Jun 18:08
· 75 commits to main since this release
v0.5.0
3c84119

BREAKING CHANGES:

  • cfdna fcoverage --normalize-by-length is now actually called --normalize-by-length instead of --normalize-by-length-mode, matching the guides and documentation.
  • The Rust crate feature cmd_ref_gc_bias has been removed. Enable cmd_gc_bias (on by default) to compile both the gc-bias and ref-gc-bias command APIs.

Other changes:

  • Pins the build-time Clang/LLVM conda packages to version 21.x in installation instructions to avoid broken rust-htslib bindings with libclang version 22.
  • cfdna fragment-count-weights and cfdna coverage-weights shows progress bar by default in the internal call to cfdna fcoverage.
  • CLI runs now log the equivalent full cfdna <COMMAND> <OPTION> command call for reproducibility and transparency.
  • The Rust library can render equivalent command calls from exported configs without enabling the cli feature. This adds the RunOptions.log_equivalent_cli field.
  • Adds initial output loaders for lengths, fcoverage, ends, and midpoints to the Rust library.
  • General feature gating improvements for an improved library experience.
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