renamed protein and pathogen fields

ylab-hi · Sep 2, 2024 · d52df6e · d52df6e
1 parent 4e1345f
commit d52df6e
Showing 1 changed file with 2 additions and 2 deletions.
diff --git a/workflow/scripts/prioritization/filtering.py b/workflow/scripts/prioritization/filtering.py
@@ -95,14 +95,14 @@ def __init__(self, output_dir, mhc_class, vartype):
             df.insert(len(df.keys()), "pathogen_similarity", score)
             df.insert(len(df.keys()), "pathogen_evalue", evalue)
             df.insert(len(df.keys()), "pathogen_bitscore", bitscore)
-            df.insert(len(df.keys()), "pathogen_organism", organism)
+            df.insert(len(df.keys()), "pathogen", organism)
 
             # calculate proteome similarity
             prot_score, prot_evalue, prot_bit, prot = self.proteome_similarity(mt_epitope_seq)
             df.insert(len(df.keys()), "proteome_similarity", prot_score)
             df.insert(len(df.keys()), "proteome_evalue", prot_evalue)
             df.insert(len(df.keys()), "proteome_bitscore", prot_bit)
-            df.insert(len(df.keys()), "proteome_organism", prot)
+            df.insert(len(df.keys()), "protein", prot)
 
             self.outfile = os.path.join(output_dir, f"{vartype}_{mhc_class}_neoepitopes.txt")