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Update CI subset files to include rmats #406

Merged
merged 1 commit into from
Jun 22, 2023
Merged

Update CI subset files to include rmats #406

merged 1 commit into from
Jun 22, 2023

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ewafula
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@ewafula ewafula commented Jun 22, 2023

Purpose/implementation Section

What scientific question is your analysis addressing?

Update create-subset-files to include rmats for the v13 data release.

What was your approach?

  • update the module to Include all selected subset RNA samples to create rmats CI subset file - load rmats file using arrow::read_tsv_arrow()
  • updated Dockerfile to include arrow R package for loading data files requiring large amounts of memory

What GitHub issue does your pull request address?

Directions for reviewers. Tell potential reviewers what kind of feedback you are soliciting.

Which areas should receive a particularly close look?

Updated sections to subset rmats file

Is there anything that you want to discuss further?

NA

Is the analysis in a mature enough form that the resulting figure(s) and/or table(s) are ready for review?

Yes

Results

What types of results are included (e.g., table, figure)?

tables

What is your summary of the results?

CI sunset file in data/testing/v12 local repo directory

Reproducibility Checklist

  • The dependencies required to run the code in this pull request have been added to the project Dockerfile.
  • This analysis has been added to continuous integration.

Documentation Checklist

  • This analysis module has a README and it is up to date.
  • This analysis is recorded in the table in analyses/README.md and the entry is up to date.
  • The analytical code is documented and contains comments.

@ewafula ewafula requested a review from jharenza June 22, 2023 13:20
@jharenza jharenza merged commit 8fe8c5a into dev Jun 22, 2023
29 checks passed
@jharenza jharenza deleted the create-rmat-subset branch June 22, 2023 22:05
This pull request was closed.
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2 participants