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@SietsmaRJ SietsmaRJ released this 01 Jun 09:48
v2.0.0
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Learn about vigilant mode.

Additions:

  • Added setup.py for easy installation
  • Added the CAPICE training scripts, so users are now able to create new CAPICE like models.
  • Added config.cfg for additional setup.

General improvements:

  • Changed code structure for be more object orientated

Command line interface:

  • Changed input argument --input_path to -i
  • Removed input argument --model_path
  • Made output argument --prediction_savepath optional with -o
  • Added flags for verbose (-v), force (-f) and train (--train)

Output:

  • Changed output of CAPICE to no longer remove duplicate entries upon 'chrom-pos-ref-alt'
  • Exposed transcript identifier
  • Removed unused columns (prediction and combined_prediction)

Bugfixes:

  • #16 Apply command-line argument conventions
  • #17 Expose transcript identifier for predicted score
  • #18 Add tests for Python code
  • #20 Add training scripts to Github to enable reproducing the model
  • #21 Log warnings for variants that can't be processed
  • #24 'there shouldn't be any nulls' and 'feature from the model not in data' log messages
  • #28 PIP install pandas==1.0.2 on Python 3.9+ fails to install
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