codecov-commenter
commented
10 months ago Codecov Report
Attention: 16 lines in your changes are missing coverage. Please review.
Comparison is base (
779de75) 94.12% compared to head (cfc6ba6) 93.36%.:exclamation: Current head cfc6ba6 differs from pull request most recent head cc47207. Consider uploading reports for the commit cc47207 to get more accurate results
| Files | Patch % | Lines |
|---|---|---|
| R/contrastsTest.R | 35.71% | 9 Missing :warning: |
| R/differentialTest.R | 87.50% | 3 Missing :warning: |
| R/clean_taxa_names.R | 85.71% | 1 Missing :warning: |
| R/convert_phylo.R | 87.50% | 1 Missing :warning: |
| R/otu_to_taxonomy.R | 85.71% | 1 Missing :warning: |
| R/warn_phyloseq.R | 0.00% | 1 Missing :warning: |
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Additional details and impacted files
```diff @@ Coverage Diff @@ ## main #171 +/- ## ========================================== - Coverage 94.12% 93.36% -0.77% ========================================== Files 34 35 +1 Lines 1158 1176 +18 ========================================== + Hits 1090 1098 +8 - Misses 68 78 +10 ```:umbrella: View full report in Codecov by Sentry.
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This pull request does several things:
-it adds new data, specifically the sample data, otu tables, and in some cases taxonomy tables, that make up phyloseq objects used for tests and the vignette -it removes all phyloseq objects from the data folder of the package -it updates all examples so that they run without phyloseq and without phyloseq data objects (for
bbdml(),differentialTest(), andcontrastsTest(), there are examples using phyloseq wrapped in\donotrun{}tags) -it takes all tests that use phyloseq and puts them into a single testing file, where the phyloseq objects are created from the dataframes stored in the package -it creates a new vignette that doesn't use phyloseq (with most of the same analyses as the original vignette that does use phyloseq)