Update data/embeddings/mashup_string/README.md

data/embeddings/mashup_string/README.md

@@ -3,7 +3,6 @@
 - Modality: PPI / network
 - Algorithm: Pretrained Mashup STRING human network vectors standardized by enriched symbol/protein-ID mapping
 - Embedding source URL: https://mashup.csail.mit.edu/
-- Original model/code URL: https://mashup.csail.mit.edu/
 
 ## Public files
 
@@ -51,8 +50,6 @@ Mashup is a network-integration method. In this resource, the retained matrix is
     original_model_or_method: Mashup-STRING
     input_data_type: pretrained Mashup STRING human vectors and matching gene list
     raw_source: ~/data/raw_embeddings/mashup/
-    processing_script: ~/scripts/process_embeddings/process_mashup_string_v1_1.py
-    mapping_or_qc_report: ~/reports/mapping_reports/mashup_string_v1_1_mapping_report.txt
     source_download_page: https://mashup.csail.mit.edu/
     source_code_page: https://mashup.csail.mit.edu/
     source_identifier_type: Mashup gene name / gene symbol, with some source records requiring protein-ID rescue
@@ -65,9 +62,7 @@ Mashup is a network-integration method. In this resource, the retained matrix is
 
 ### Source-processing decisions
 
-The source was treated as an already-computed network embedding. Therefore, the local processing did not rebuild STRING networks and did not retrain Mashup. The local work was focused on making the source vectors compatible with the rest of the library: source identifier parsing, mapping to the master table, duplicate handling, QC, and saving in the common public format.
-
-The most important provenance point for Mashup is the upstream network source/version. The README records this as Mashup/STRING source material. If the exact STRING version is later recovered from the raw files or original Mashup metadata, it should be added, because STRING version affects the biological meaning of the network.
+The source was treated as an already-computed network embedding. Therefore, the local processing did not rebuild STRING networks and did not retrain Mashup. 
 
 ### Mapping and duplicate-handling decisions
 
@@ -89,9 +84,9 @@ For this embedding:
 
 ### Important implementation decisions
 
-This README describes the standardized gene-level version included in the public resource. The central requirement was that every retained row must align to one gene in master_gene_table.csv and that the matrix row order must match genes.tsv exactly.
+The central requirement was that every retained row must align to one gene in master_gene_table.csv and that the matrix row order must match genes.tsv exactly.
 
-For Mashup, the original biological representation was preserved from the downloaded pretrained Mashup/STRING vectors. The local work did not retrain Mashup or rebuild STRING networks; it only performed identifier parsing, master-table mapping, duplicate handling, QC, and conversion to the shared public format.
+For Mashup, the original biological representation was preserved from the downloaded pretrained Mashup/STRING vectors.
 
 ### Summary of final mapping: