def __init__(self):
self.__parser = reqparse.RequestParser()
self.__parser.add_argument(GENES, type=str)
self.__parser.add_argument(ALPHA, type=float)
self.__parser.add_argument(ONTOLOGY_TYPE, type=str)
self.__tester = HypergeometricTest()
def __init__(self):
self.__parser = reqparse.RequestParser()
self.__parser.add_argument(GENES, type=str)
self.__parser.add_argument(ALPHA, type=float)
self.__parser.add_argument(ONTOLOGY_TYPE, type=str)
self.__tester = HypergeometricTest()
class TermEnrichment(Resource):
def __init__(self):
self.__parser = reqparse.RequestParser()
self.__parser.add_argument(GENES, type=str)
self.__parser.add_argument(ALPHA, type=float)
self.__parser.add_argument(ONTOLOGY_TYPE, type=str)
self.__tester = HypergeometricTest()
def get(self):
return {'results': 'use POST to get results.'}
def post(self):
results = []
args = self.__parser.parse_args()
# Gene names are case INSENSITIVE!
genes = args[GENES]
cutoff = args[ALPHA]
ontology_type = args[ONTOLOGY_TYPE]
if ontology_type is None:
ontology_type = 'NEXO'
elif ontology_type not in VALID_ONTOLOGY:
return {'results': 'Ontology type not supported: ' + ontology_type}
gene_list = genes.split()
genes_upper = []
for gene in gene_list:
genes_upper.append(gene.upper())
# print(genes_upper)
return self.__tester.perform_test(ontology_type, genes_upper, cutoff)
class TermEnrichment(Resource):
def __init__(self):
self.__parser = reqparse.RequestParser()
self.__parser.add_argument(GENES, type=str)
self.__parser.add_argument(ALPHA, type=float)
self.__parser.add_argument(ONTOLOGY_TYPE, type=str)
self.__tester = HypergeometricTest()
def get(self):
return {'results': 'use POST to get results.'}
def post(self):
results = []
args = self.__parser.parse_args()
# Gene names are case INSENSITIVE!
genes = args[GENES]
cutoff = args[ALPHA]
ontology_type = args[ONTOLOGY_TYPE]
if ontology_type is None:
ontology_type = 'NEXO'
elif ontology_type not in VALID_ONTOLOGY:
return {'results': 'Ontology type not supported: ' + ontology_type}
gene_list = genes.split()
genes_upper = []
for gene in gene_list:
genes_upper.append(gene.upper())
# print(genes_upper)
return self.__tester.perform_test(ontology_type, genes_upper, cutoff)
