bug修复

tools/parsexlsx.py

@@ -50,8 +50,9 @@ class Parse(BaseAssignment):
         if data.empty:
             self.result['snvindel'] = res
             return
-
-        data = data[data['Validated'] == 1].reset_index()
+        data['freq'] = data['mutant_frequency'].apply(lambda x: float(x.replace('%', '')))
+        # 去除不可信，vus中的 %2以下的突变
+        data = data[data['Validated'] == 1 & (~((data['freq'] < 2) & (data['AMP_mut_level'] == 'III')))].reset_index()
         data['muttype'] = '/'
         data.loc[data['ExonicFunc.refGene'].str.match('nonsynonymous SNV'), 'muttype'] = '错义突变'
         data.loc[data['ExonicFunc.refGene'].str.match('^frameshift'), 'muttype'] = '移码突变'
@@ -79,7 +80,8 @@ class Parse(BaseAssignment):
             # 汇总
             if alter_res['AMP_mut_level'] in ['I', 'II']:
                 self.signtb.add(alter)
-                self.sign_from_type['target'][alter_res['gene']] = '%s %s' % (alter_res['gene'], alter_res['nacid'])
+                self.sign_from_type['target'][alter_res['gene']] = '%s(%s)' % (
+                alter_res['aacid'], alter_res['mutant_frequency'])
 
         self.result['snvindel'] = res
 
@@ -424,7 +426,7 @@ class Parse(BaseAssignment):
                 self.signdurg.update(set(drug_category_alter_data_split['drug_split'].tolist()))
             drug_category_alter_data_split['drugdes'] = drug_category_alter_data_split.apply(
                 lambda x: '%s 【%s 级】' % (x['drug_split'], x['AMP_evidence_level']), axis=1)
-            drug_category_res[drug_category] = '\n'.join(drug_category_alter_data_split['drugdes'].to_list())
+            drug_category_res[drug_category] = '\n'.join(set(drug_category_alter_data_split['drugdes'].to_list()))
 
         # 所有药物信息
         groupdata['list_col'] = groupdata['DrugCn'].str.replace(' + ', '+').str.split(r'[+,]')