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scripts/parse_harbison_data.R

@@ -135,3 +135,29 @@ combined_harbison_harmonized %>%
   group_by(condition, regulator_locus_tag) %>%
   write_dataset(path = here("data/harbison/hf/data"), format = "parquet")
 
+combined_harbison_harmonized %>%
+  select(regulator_locus_tag,regulator_symbol,
+         target_locus_tag, target_symbol,
+         condition, effect, pvalue) %>%
+  write_parquet("~/code/hf/harbison_2004/harbison_2004.parquet",
+                compression = "zstd",
+                write_statistics = TRUE,
+                chunk_size = 6226,
+                use_dictionary = c(
+                  condition = TRUE,
+                  regulator_locus_tag = TRUE,
+                  regulator_symbol = TRUE,
+                  target_locus_tag = TRUE,
+                  target_symbol = TRUE
+                )
+  )
+
+combined_harbison_harmonized %>%
+  select(harbison_locus_tag, target_locus_tag) %>%
+  distinct() %>%
+  write_csv("~/code/hf/harbison_2004/scripts/harbison_locus_tag_to_target_locus_tag.csv")
+
+combined_harbison_harmonized %>%
+  select(harbison_regulator, regulator_locus_tag) %>%
+  distinct() %>%
+  write_csv("~/code/hf/harbison_2004/scripts/harbison_regulator_to_regulator_locus_tag.csv")