Merge pull request #90 from Sage-Bionetworks/AG-866_reprocess_srm_data

Ag-866/Ag-1227 Process SRM DE data
Sage-Bionetworks · Nov 3, 2023 · c7d64fa · c7d64fa
2 parents 32e6f94 + 38697f3
commit c7d64fa
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Showing 11 changed files with 1,078 additions and 2 deletions.
diff --git a/config.yaml b/config.yaml
@@ -70,6 +70,19 @@
           ensg: ensembl_gene_id
         destination: *dest
 
+    - proteomics_srm:
+        files:
+          - name: agora_proteomics_srm
+            id: syn52579640.3
+            format: csv
+        final_format: json
+        provenance:
+          - syn52579640.3
+        column_rename:
+          genename: hgnc_symbol
+          ensg: ensembl_gene_id
+        destination: *dest
+
     - target_exp_validation_harmonized:
         files:
           - name: target_exp_validation_harmonized
@@ -107,6 +120,9 @@
           - name: agora_proteomics_tmt
             id: syn35221005.2
             format: csv
+          - name: agora_proteomics_srm
+            id: syn52579640.3
+            format: csv
           - name: rna_expression_change
             id: syn27211942.1
             format: tsv
@@ -146,6 +162,7 @@
           - syn12514912.3
           - syn18689335.3
           - syn35221005.2
+          - syn52579640.3
           - syn27211942.1
           - syn12540368.41
           - syn27211878.2
@@ -255,9 +272,13 @@
           - name: proteomics_tmt
             id: syn35221005.2
             format: csv
+          - name: proteomics_srm
+            id: syn52579640.3
+            format: csv
         final_format: json
         custom_transformations: 1
         provenance:
           - syn18689335.3
           - syn35221005.2
+          - syn52579640.3
         destination: *dest