Code

Add tb validation notebook#4

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Merged

ryanjameskennedy merged 18 commits intomasterSMD-Bioinformatics-Lund/jasentool:masterfrom add-validation-notebookSMD-Bioinformatics-Lund/jasentool:add-validation-notebookCopy head branch name to clipboardJul 29, 2024

+956-35

Commits

Commits on Jun 25, 2024

• Add tb validation notebook

  ryanjameskennedy

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  3c0f648

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Commits on Jun 26, 2024

• Update pyproject.toml bug

  ryanjameskennedy

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  ee99781

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Commits on Jul 1, 2024

• Output csv for failed validation samples

  ryanjameskennedy

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  00eee84

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• Change id format for fix and missing

  ryanjameskennedy

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  e51788a

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Commits on Jul 4, 2024

• Add differential matrix for validation

  ryanjameskennedy

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  975995e

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• TB notebook fixes

  ryanjameskennedy

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  3da5702

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• Add saureus validation notebook

  ryanjameskennedy

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  f9fc094

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Commits on Jul 5, 2024

• Minor efficiency updates

  ryanjameskennedy

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  e80c7cb

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Commits on Jul 9, 2024

• Test new comparison of cgmlst alleles

  ryanjameskennedy

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  21a583e

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• Add --generate_matrix argument to cli

  ryanjameskennedy

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  93821d6

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• Fix cgmlst comparison and plots

  ryanjameskennedy

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  5595655

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Commits on Jul 12, 2024

• Summed differential matrix

  ryanjameskennedy

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  098bfd6

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Commits on Jul 18, 2024

• Change matrix to boxplot, jitter, and annotate

  ryanjameskennedy

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  ea8319c

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Commits on Jul 22, 2024

• Add alter_sample_id filter

  ryanjameskennedy

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  8b2ef63

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Commits on Jul 23, 2024

• Fix fix subarg

  ryanjameskennedy

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  f429e6d

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Commits on Jul 26, 2024

• Add mean coverage plot

  ryanjameskennedy

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  d954014

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• Fix TN/TP/FN/FP plots

  ryanjameskennedy

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  bee6395

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• Jitter mean coverage boxplot

  ryanjameskennedy

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  0ecec81

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