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Create unit tests for HTTR gene data fit with tcplfit2 #36

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sedavid01 opened this issue Sep 12, 2023 · 1 comment
Open
3 tasks

Create unit tests for HTTR gene data fit with tcplfit2 #36

sedavid01 opened this issue Sep 12, 2023 · 1 comment

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@sedavid01
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sedavid01 commented Sep 12, 2023

Goal: The goal of this issue is to create unit tests for high-throughput transcriptomics (HTTR) gene data such that we ensure that as the codebase of tcplfit2 is updated that the updates do not break/alter the results previously obtained in previous analyses with tcplfit2.

Needs for finishing this ticket:

  • Choose a manageable subset of the overall data provided by the HTTR team - verify the chosen set covers many (if not all) scenarios of interest
  • Create an RData file for the package (may want to ensure we do NOT want this to be exported from the package)
  • Create a unit test ensuring that the results for HTTR remain consistent from version to version of tcplfit2
@sedavid01 sedavid01 changed the title Create unit tests for HTTR data fit with tcplfit2 Create unit tests for HTTR gene data fit with tcplfit2 Sep 12, 2023
@sedavid01
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Baseline sampling strategy:

  • utilize the previous used criteria for HTPP to fulfill needs we need to meet
  • randomly select 50 genes (covering the previous bullet) as a baseline number of genes to select - make sure to account for the amount of time it takes to fit and test with these first 50. If the time is relatively fast - no longer than a few minutes - then may look to bump up to 100 genes.

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