v0.1.6 - Bug fix for Pubmed Enrichment

- Fix print statement for query gene comentions

Author: kevwilhelm95

README.md

@@ -1,5 +1,5 @@
 # pyCfS
-Version 0.1.5<br>
+Version 0.1.6<br>
 The aggregation of Lichtarge Lab genotype-phenotype validation experiments<br>
 
 ## Installation

pyCfS/GoldStandards.py

@@ -2284,10 +2284,13 @@ def _get_unique_gene_network_bw_method_connections(network:pd.DataFrame, unique_
     bw_method_edges = []
 
     for g in net_genes:
+        # Get all connections where node1 = g
         df1 = network[network['node1'] == g]
+        # Get all genes connected to g in node2
         df1_genes = df1['node2'].tolist()
-
+        # Loop through all genes connected to g in node2
         for p in df1_genes:
+            # If the genes is not from the same set, add to bw_method_edges
             if unique_dict[p][0] != unique_dict[g][0]:
                 bw_method_edges.append([g, p])
 
@@ -3430,7 +3433,6 @@ def pubmed_comentions(query:list, keyword: str = False, custom_terms: str = Fals
     output_name = keyword if keyword else custom_terms
     # Pull the query co_mentions with keyword
     query_comention_df = _fetch_query_pubmed(query, keyword, custom_terms, email, api_key, field, workers)
-    print(query_comention_df.head())
     # Pull co_mentions for a random set of genes
     if run_enrichment:
         background_dict, background_name = _define_background_list(custom_background)

pyCfS/__init__.py

@@ -10,5 +10,5 @@
 
 from .utils import _hypergeo_overlap, _load_grch38_background, _load_string, _load_reactome, _get_open_targets_gene_mapping, _define_background_list, _clean_genelists, _format_scientific, _fix_savepath, _select_evidences, _get_evidence_types, _get_combined_score, _get_edge_weight, _load_clean_string_network, _validate_ea_thresh, _validate_af_thresh
 
-__version__ = '0.1.5'
+__version__ = '0.1.6'
 __author__ = 'Kevin Wilhelm, Jenn Asmussen'

setup.py

@@ -3,7 +3,7 @@
 """
 import setuptools
 
-VERSION = '0.1.5'
+VERSION = '0.1.6'
 
 setuptools.setup(
     name = 'pyCfS',