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Commits on Mar 8, 2023

• Add instructions for setting up the VM.

  anastasiyabl

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Commits on Mar 1, 2023

• Update README and docs.

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  anastasiyabl

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Commits on Feb 28, 2023

• Fix deepconsensus filter_reads cli.

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  anastasiyabl

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• Update inspecting examples colab.

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  anastasiyabl

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• Small fix to path in training tutorial.

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  anastasiyabl

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Commits on Feb 27, 2023

• Add filter_reads capability to DeepConsensus CLI.

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  kishwarshafin

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Commits on Feb 24, 2023

• Add 'pyproject.toml' for pip installation to address DEPRECATION warning

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  anastasiyabl

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• Get ccs_seqname from the a aligned reference rather than constructing it from the subread.

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  danielecook

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Commits on Feb 23, 2023

• Add calibration page.

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  anastasiyabl

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Commits on Feb 17, 2023

• Update yield and runtime metrics with v1.2.

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  anastasiyabl

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• Update version numbers for v1.2.

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  anastasiyabl

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Commits on Feb 15, 2023

• Update assembly metrics for v1.2.

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  anastasiyabl

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Commits on Feb 10, 2023

• Enable making tf examples with maize data.

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  anastasiyabl

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• Update python formatting.

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  danielecook

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Commits on Feb 8, 2023

• Uncap base quality scores to 93 by default.

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  anastasiyabl

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Commits on Feb 2, 2023

• Fix location of ccs bq embedding layer.

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  danielecook

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Commits on Jan 31, 2023

• Finalize CCS BQ Integration.

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  danielecook

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• Update tensorflow-related packages to tf2.9 version.

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  anastasiyabl

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• Silence some pytype errors.

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  Genomics team in Google Health

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Commits on Jan 30, 2023

• Add flag for generating tf examples with ccs base quality scores.

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  danielecook

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Commits on Jan 27, 2023

• Add profiling scope.

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  danielecook

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• Modify `get_indices` to handle ccs_bq scores.

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  danielecook

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Commits on Jan 26, 2023

• Modify total_rows calculation to account for base quality scores.

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  danielecook

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Commits on Jan 25, 2023

• Allow for base quality scores to be processed by example generation pipeline.

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  danielecook

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Commits on Jan 12, 2023

• Internal Updates

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  danielecook

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Commits on Jan 4, 2023

• Move `params.vocab_size` to `dc_constants.VOCAB_SIZE`.

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  danielecook

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Commits on Jan 3, 2023

• Internal Update

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  danielecook

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Commits on Dec 21, 2022

• Add warm start to TPU tutorial

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  akolesnikov

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Commits on Dec 20, 2022

• Use ReZero instead of LayerNorms.

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  Genomics team in Google Health

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• Fix inconsistent training steps.

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  Genomics team in Google Health

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• Remove todo.

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  danielecook

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Commits on Dec 15, 2022

• Update TPU tutorial with the latest version of TF.

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  akolesnikov

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• Fix remaining version numbers for the release.

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  anastasiyabl

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• Update tensorflow-related packages to the latest version.

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  anastasiyabl

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• [NumPy] Remove references to deprecated NumPy type aliases.

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  Genomics team in Google Health

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