def get_accession_in_pmc_fulltext(id_type, id, pmc_query):
pmc_ids = []
accession_variants = get_accession_variants(id_type, id)
for variant in accession_variants:
query = variant + "[text] AND " + pmc_query
try:
pmc_ids += pubmedcentral.search(query)
except Exception, e:
print "error for some reason!", e
print "skipping query= ", query
print 1 / 0
pass
def estimate_pmc_coverage(query, start_year="1800", end_year="3000"):
pubmed_query = query + ' AND ("' + start_year + '"[pdat] : "' + end_year + '"[pdat])'
pubmed_ids = pubmed.search(pubmed_query)
num_pubmed = len(pubmed_ids)
pmc_query = query + ' AND ("' + start_year + '"[PubDate] : "' + end_year + '"[PubDate])'
pmc_ids = pubmedcentral.search(pmc_query)
num_pmc = len(pmc_ids)
ratio = num_pmc / (num_pubmed + 0.0)
return (num_pmc, num_pubmed, ratio)
def get_accession_in_pmc_fulltext(id_type, id, pmc_query):
pmc_ids = []
accession_variants = get_accession_variants(id_type, id)
for variant in accession_variants:
query = variant + "[text] AND " + pmc_query
try:
pmc_ids += pubmedcentral.search(query)
except Exception, e:
print "error for some reason!", e
print "skipping query= ", query
print 1/0
pass
def estimate_pmc_coverage(query, start_year="1800", end_year="3000"):
pubmed_query = query + ' AND ("' + start_year + '"[pdat] : "' + end_year + '"[pdat])'
pubmed_ids = pubmed.search(pubmed_query)
num_pubmed = len(pubmed_ids)
pmc_query = query + ' AND ("' + start_year + '"[PubDate] : "' + end_year + '"[PubDate])'
pmc_ids = pubmedcentral.search(pmc_query)
num_pmc = len(pmc_ids)
ratio = num_pmc / (num_pubmed + 0.0)
return(num_pmc, num_pubmed, ratio)
def get_pmc_results(query):
pmcids = pubmedcentral.search(query)
pmids = pubmedcentral.pmcids_to_pmids(pmcids)
return(pmids)
def get_pmc_results(query):
pmcids = pubmedcentral.search(query)
pmids = pubmedcentral.pmcids_to_pmids(pmcids)
return (pmids)
