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Add metric QC function#78

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lcolladotor merged 21 commits intodevelLieberInstitute/spatialLIBD:develfrom add-metric-qc-functionLieberInstitute/spatialLIBD:add-metric-qc-functionCopy head branch name to clipboardJul 10, 2024

+218-1

Commits

Commits on May 3, 2024

• Copied metrics_qc from https://github.com/LieberInstitute/spatial_NAc/blob/56c67e7c0421e6dcf71fe2db6ef2c7b62ed15e58/code/05_harmony_BayesSpace/02-compute_QC_metrics.R#L68-L128

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Commits on May 6, 2024

• Add example, add imports, update colnames

  lahuuki

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• Add more examples, use tidy style tools to find edge spots + edge distance

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• Clean up comments & old code

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• Improve metrics_qc() docs

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• Add handling for in_tissue/out_tissue spots

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• Add checks for key columns

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• Add basic test for metrics_qc

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• Style code

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Commits on May 17, 2024

• define variables

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• comment out scater::plotColData from example to debug

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• Add dplyr to DESCRIPTION

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• add as.logical to in_tissue, fix undefined variables

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• Fix imports & example

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• Rename function to add_qc_metrics()

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• Update function name add_qc_metrics in docs

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• Update add_qc_metrics name in test

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Commits on May 31, 2024

• fix sscran typo

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Commits on Jun 10, 2024

• Update QC col in test

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Commits on Jun 26, 2024

• Fix scran_high_Mito_percent argument name

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Commits on Jul 10, 2024

• Merge branch 'devel' into add-metric-qc-function

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