pubmed

问题 Closed. This question needs debugging details. It is not currently accepting answers. Want to improve this question? Update the question so it's on-topic for Stack Overflow. Closed 3 months ago . Improve this question RISmed (well, technically EUtilsGet) has decided to be problematic. Trying to download the titles from ~3000 PMIDs results in an error: Error in h(simpleError(msg, call)) : error in evaluating the argument 'object' in selecting a method for function 'YearPubmed': cannot open the

问题 i want to get data with sparql from Medical Subject Headings RDF i try to do this code : PREFIX xsd: <http://www.w3.org/2001/XMLSchema#> PREFIX owl: <http://www.w3.org/2002/07/owl#> PREFIX meshv: <http://id.nlm.nih.gov/mesh/vocab#> PREFIX mesh: <http://id.nlm.nih.gov/mesh/> PREFIX mesh2015: <http://id.nlm.nih.gov/mesh/2015/> PREFIX mesh2016: <http://id.nlm.nih.gov/mesh/2016/> PREFIX mesh2017: <http://id.nlm.nih.gov/mesh/2017/> SELECT DISTINCT ?descriptor ?label FROM <http://id.nlm.nih.gov

问题 i want to get data with sparql from Medical Subject Headings RDF i try to do this code : PREFIX xsd: <http://www.w3.org/2001/XMLSchema#> PREFIX owl: <http://www.w3.org/2002/07/owl#> PREFIX meshv: <http://id.nlm.nih.gov/mesh/vocab#> PREFIX mesh: <http://id.nlm.nih.gov/mesh/> PREFIX mesh2015: <http://id.nlm.nih.gov/mesh/2015/> PREFIX mesh2016: <http://id.nlm.nih.gov/mesh/2016/> PREFIX mesh2017: <http://id.nlm.nih.gov/mesh/2017/> SELECT DISTINCT ?descriptor ?label FROM <http://id.nlm.nih.gov

问题 So im making a query it returns me PMCIDs which is again used to query using tidypmc libray to parse table which contains metadata from various papers, which is finally returned as list.Some of the PMCIDs will be empty since it doesn't have a proper table tag etc. So now I want to save each PMCIDs into individual file, which i tried but i got an error, its not that straightforward if i get it. Since under each list of PMCIDs there are multiple table which should be also need to saved under

问题 So im making a query it returns me PMCIDs which is again used to query using tidypmc libray to parse table which contains metadata from various papers, which is finally returned as list.Some of the PMCIDs will be empty since it doesn't have a proper table tag etc. So now I want to save each PMCIDs into individual file, which i tried but i got an error, its not that straightforward if i get it. Since under each list of PMCIDs there are multiple table which should be also need to saved under

问题 This is my sample output table which i want to parse and get this the image i will post. dput(head(tbl2,20)) structure(list(PMCID = c("PMC7362563", "PMC7362563", "PMC7362563", "PMC7362563", "PMC7362563", "PMC7362563", "PMC7362563", "PMC7362563", "PMC7362563", "PMC7362563", "PMC7362563", "PMC7362563", "PMC7362563", "PMC7362563", "PMC7362563", "PMC7362563", "PMC7362563", "PMC7362563", "PMC7362563", "PMC7362563"), table = c("Table 1", "Table 1", "Table 1", "Table 1", "Table 1", "Table 1", "Table

问题 I am trying to input over 200 entries into pubmed in order to record the number of articles published by an author and to refine the search by including his/her mentor and institution. I have tried to do this using biopython and xlrd (the code is below), but I am consistently getting 0 results for all three formats of inquiries (1. by name, 2. by name and institution name, and 3. by name and mentor's name). Are there steps of troubleshooting that I can do, or should I use a different format

问题 I'm pulling data from PubMed as XML and using curl to process those results which I load into another page as SimpleXML. This allows me to grab the information I need (a list of pub IDs) and use that as a variable for ANOTHER pubmed scrape. This one gets the summaries of the specific pub IDs. Here's my first file (the $name will eventually be dynamic): <?php header('Content-type: text/xml'); $name = 'white,theodore'; $ch = curl_init(); curl_setopt($ch, CURLOPT_URL, 'https://eutils.ncbi.nlm

问题 My overall goal is to build a co-author network graph. I have a list of PubMed ID's and these are the only publications I am interested in for the graphing of the co-author network. I can't figure out how to get both the Author names and respective affiliations together in my query using rentrez. I can get both information but my list of affiliations is about 300 less than my author list so obviously some did not provide affiliations but I can't figure out who. Any way to search for Author

问题 I am at a loss. I have been trying to get this to work for days now. But I am not getting anywhere with this, so I figured I'd consult you guys here and see if someone is able to help me! I am using pyparsing in an attempt to parse one query format to another one. This is not a simple transformation but actually takes some brains :) The current query is the following: ("breast neoplasms"[MeSH Terms] OR breast cancer[Acknowledgments] OR breast cancer[Figure/Table Caption] OR breast cancer