Make HGNC queries for gene symbols
Project description
hgnc_queries.py
Query HGNC for gene symbols.
Created to attempt to rescue old gene symbols because of an old excel "database" that had to be converted in a Django database
Installation
pip install hgnc-queries
Examples:
Use HGNC queries to get:
>> import hgnc_queries
>> hgnc_queries.get_new_symbol("RN5S49", verbose = False)
RNA5SP49
>> hgnc_queries.get_gene_starting_with("BRCA", verbose = False)
["BRCA1", "BRCA1P1", "BRCA2", "BRCA3"]
>> hgnc_queries.get_alias("ARID1B", verbose = False)
["KIAA1235", "ELD/OSA1", "p250R", "BAF250b", "DAN15", "6A3-5"]
>> hgnc_queries.get_main_symbol(BRAF1, verbose = False)
BRAF
>> hgnc_queries.get_prev_symbol("COL2A1", verbose = False)
["SEDC", "AOM"]
>> hgnc_queries.get_id("BRAF", verbose = False)
HGNC:1097
>>hgnc_queries.get_symbol_from_id("1097", verbose = False)
BRAF
# new function more for in-script use
# get the hgnc symbol if gene symbol not recognized by the process you're using
>>print(queries.get_hgnc_symbol("RN5S49"))
RNA5SP49
>>print(queries.get_hgnc_symbol("BRAF1"))
BRAF
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