Finished adding logx transformation

Plant-Food-Research-Open · Feb 21, 2024 · b9f4504 · b9f4504
1 parent e69036d
commit b9f4504
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Showing 9 changed files with 646 additions and 231 deletions.
diff --git a/NAMESPACE b/NAMESPACE
@@ -163,9 +163,11 @@ export(subset_features)
 export(transform_bestNormalise_auto)
 export(transform_bestNormalise_manual)
 export(transform_dataset)
+export(transform_logx)
 export(transform_vsn)
 export(transform_vst)
 export(transformation_datasets_factory)
+export(zero_to_half_min)
 exportClasses(MetabolomeSet)
 exportClasses(PhenotypeSet)
 exportMethods(add_metabo)

diff --git a/R/transformation.R b/R/transformation.R
diff --git a/man/get_table_transformations.Rd b/man/get_table_transformations.Rd
diff --git a/man/transform_dataset.Rd b/man/transform_dataset.Rd
diff --git a/man/transform_logx.Rd b/man/transform_logx.Rd
diff --git a/man/transformation_datasets_factory.Rd b/man/transformation_datasets_factory.Rd
diff --git a/man/zero_to_half_min.Rd b/man/zero_to_half_min.Rd
diff --git a/tests/testthat/helper.R b/tests/testthat/helper.R
@@ -198,3 +198,10 @@ test_extract_samples_score <- function(x, ld) {
     dplyr::select(sample_id, score) |>
     tibble::deframe()
 }
+
+test_clean_expression <- function(x) {
+  as.character(x) |>
+    stringr::str_remove_all("\n") |>
+    stringr::str_replace_all("\\s+", " ") |>
+    stringr::str_remove_all("(?<=function) (?=\\()")
+}