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[GDR-3410] Add public data from DepMap Portal#77

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j-smola merged 8 commits into
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GDR-3410
Jun 1, 2026
Merged

[GDR-3410] Add public data from DepMap Portal#77
j-smola merged 8 commits into
mainfrom
GDR-3410

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@j-smola
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@j-smola j-smola commented Jun 1, 2026

Description

What changed?

Related JIRA issue:
GDR-3410

Why was it changed?

To allow using DepMap data in examples accross gDRplatform

Checklist for sustainable code base

  • I added tests for any code changed/added
  • I added documentation for any code changed/added
  • I made sure naming of any new functions is self-explanatory and consistent

Logistic checklist

  • Package version bumped
  • Changelog updated

Screenshots (optional)

@j-smola j-smola requested review from bczech, darsoo and gladkia June 1, 2026 12:52
@j-smola j-smola requested a review from a team as a code owner June 1, 2026 12:52
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Code Review

This pull request integrates public cell line and omics data from the DepMap Portal (24Q4 release) into the gDRtestData package, adding dataset documentation, a data preparation script, a detailed vignette, and corresponding Rd files. Feedback on these changes focuses on fixing a syntax error and an incorrect reference in the dataset documentation, replacing a hardcoded absolute path in the preparation script with a relative path to ensure portability, and improving the robustness of the script's column-handling logic when separating ID and numeric columns.

Comment thread R/dataset.R Outdated
Comment thread R/dataset.R Outdated
Comment thread inst/scripts/prepare_depmap_24Q4.R Outdated
Comment thread inst/scripts/prepare_depmap_24Q4.R Outdated
Comment thread inst/scripts/prepare_depmap_24Q4.R Outdated
Comment thread inst/scripts/prepare_depmap_24Q4.R Outdated
Comment thread inst/scripts/prepare_depmap_24Q4.R Outdated
@gladkia
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gladkia commented Jun 1, 2026

GJ!

@j-smola j-smola merged commit 01ef1f3 into main Jun 1, 2026
3 of 4 checks passed
@j-smola j-smola deleted the GDR-3410 branch June 1, 2026 15:00
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3 participants