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Commits on Mar 8, 2023

• Add instructions for setting up the VM.

  anastasiyabl

  committedMar 8, 2023
  979108d

Commits on Mar 1, 2023

• Update README and docs.

  

  anastasiyabl

  authored and

  Copybara-Service

  committedMar 1, 2023
  c95d8cd

Commits on Feb 28, 2023

• Fix deepconsensus filter_reads cli.

  

  anastasiyabl

  authored and

  Copybara-Service

  committedFeb 28, 2023
  82df652

• Update inspecting examples colab.

  

  anastasiyabl

  authored and

  Copybara-Service

  committedFeb 28, 2023
  7dd3bb0

• Small fix to path in training tutorial.

  

  anastasiyabl

  authored and

  Copybara-Service

  committedFeb 28, 2023
  21a5346

Commits on Feb 27, 2023

• Add filter_reads capability to DeepConsensus CLI.

  

  kishwarshafin

  authored and

  Copybara-Service

  committedFeb 27, 2023
  06f08a7

Commits on Feb 24, 2023

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

  

  anastasiyabl

  authored and

  Copybara-Service

  committedFeb 24, 2023
  0750611

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

  

  danielecook

  authored and

  Copybara-Service

  committedFeb 24, 2023
  d3c94f0

Commits on Feb 23, 2023

• Add calibration page.

  

  anastasiyabl

  authored and

  Copybara-Service

  committedFeb 23, 2023
  10114e6

Commits on Feb 17, 2023

• Update yield and runtime metrics with v1.2.

  

  anastasiyabl

  authored and

  Copybara-Service

  committedFeb 17, 2023
  b11d0c4

• Update version numbers for v1.2.

  

  anastasiyabl

  authored and

  Copybara-Service

  committedFeb 17, 2023
  77798d6

Commits on Feb 15, 2023

• Update assembly metrics for v1.2.

  

  anastasiyabl

  authored and

  Copybara-Service

  committedFeb 15, 2023
  f0f5dd0

Commits on Feb 10, 2023

• Enable making tf examples with maize data.

  

  anastasiyabl

  authored and

  Copybara-Service

  committedFeb 10, 2023
  c11b5a1

• Update python formatting.

  

  danielecook

  authored and

  Copybara-Service

  committedFeb 10, 2023
  b5546cd

Commits on Feb 8, 2023

• Uncap base quality scores to 93 by default.

  

  anastasiyabl

  authored and

  Copybara-Service

  committedFeb 8, 2023
  8b87555

Commits on Feb 2, 2023

• Fix location of ccs bq embedding layer.

  

  danielecook

  authored and

  Copybara-Service

  committedFeb 2, 2023
  02274ba

Commits on Jan 31, 2023

• Finalize CCS BQ Integration.

  

  danielecook

  authored and

  Copybara-Service

  committedJan 31, 2023
  63df275

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

  

  anastasiyabl

  authored and

  Copybara-Service

  committedJan 31, 2023
  ad16825

• Silence some pytype errors.

  

  Genomics team in Google Health

  authored and

  Copybara-Service

  committedJan 31, 2023
  b403905

Commits on Jan 30, 2023

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

  

  danielecook

  authored and

  Copybara-Service

  committedJan 30, 2023
  c0b43d5

Commits on Jan 27, 2023

• Add profiling scope.

  

  danielecook

  authored and

  Copybara-Service

  committedJan 27, 2023
  d482ca0

• Modify get_indices to handle ccs_bq scores.

  

  danielecook

  authored and

  Copybara-Service

  committedJan 27, 2023
  5c09997

Commits on Jan 26, 2023

• Modify total_rows calculation to account for base quality scores.

  

  danielecook

  authored and

  Copybara-Service

  committedJan 26, 2023
  3884c05

Commits on Jan 25, 2023

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

  

  danielecook

  authored and

  Copybara-Service

  committedJan 25, 2023
  da89777

Commits on Jan 12, 2023

• Internal Updates

  

  danielecook

  authored and

  Copybara-Service

  committedJan 12, 2023
  55ef05e

Commits on Jan 4, 2023

• Move params.vocab_size to dc_constants.VOCAB_SIZE.

  

  danielecook

  authored and

  Copybara-Service

  committedJan 4, 2023
  d9d709c

Commits on Jan 3, 2023

• Internal Update

  

  danielecook

  authored and

  Copybara-Service

  committedJan 3, 2023
  2b8f061

Commits on Dec 21, 2022

• Add warm start to TPU tutorial

  

  akolesnikov

  authored and

  Copybara-Service

  committedDec 21, 2022
  38e2ac7

Commits on Dec 20, 2022

• Use ReZero instead of LayerNorms.

  

  Genomics team in Google Health

  authored and

  Copybara-Service

  committedDec 20, 2022
  01a4e1c

• Fix inconsistent training steps.

  

  Genomics team in Google Health

  authored and

  Copybara-Service

  committedDec 20, 2022
  09d3660

• Remove todo.

  

  danielecook

  authored and

  Copybara-Service

  committedDec 20, 2022
  0023941

Commits on Dec 15, 2022

• Update TPU tutorial with the latest version of TF.

  

  akolesnikov

  authored and

  Copybara-Service

  committedDec 15, 2022
  37fb6b2

• Fix remaining version numbers for the release.

  

  anastasiyabl

  authored and

  Copybara-Service

  committedDec 15, 2022
  eb347bb

• Update tensorflow-related packages to the latest version.

  

  anastasiyabl

  authored and

  Copybara-Service

  committedDec 15, 2022
  12e0007

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

  

  Genomics team in Google Health

  authored and

  Copybara-Service

  committedDec 15, 2022
  c28cd1f

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