Displaying 7 results from an estimated 7 matches similar to: "XML getNodeSet syntax for PUBMED XML export"
2012 May 11
0
Using xpathapply or getnodeset to get text between two distinct tags
Hello:
The following code extracts the links to the daily transcripts of Canada's House Of Commons. 'links' is a matrix of URLs (ncol=1), each of which points to one day's transcripts.
If you inspect the code for scrape(links[1]), you will find that periodically there appears an italicitze tag after a paragraph tag (<p some text ><i>Translation</i></p>.
2013 Jan 15
0
paper - download - pubmed
Hi,
I actually need to download pdfs through R code.
The thing which I want to do is that, search for a paper in pubmed,
which is possible by using GetPubMed function in the package "NCBI2R?".
GetPubMed(searchterm, file = "", download = TRUE , showurl = FALSE,
xldiv = ";", hyper = "HYPERLINK",
MaxRet = 30000, sme = FALSE, smt = FALSE, quiet = TRUE,
2012 Dec 11
1
query multiple terms in PubMed abstract
Hi:
I am trying to search PubMed abstracts which contains BOTH two terms:
COL4A1 AND Ocular. I am using the following code:
url= "http://eutils.ncbi.nlm.nih.gov/entrez/eutils/esearch.fcgi?"
search = paste(url,
"db=pubmed&term=COL4A1+AND+Ocular[abstract]&retmax=300", sep="")
docId <- xmlTreeParse(getURL(paste(url, search, sep="")),
2012 Dec 27
1
Conjunction and disjunction in pubmed query
Hi:
I am trying to query pubmed abstracts using the following syntax:
url= "http://eutils.ncbi.nlm.nih.gov/entrez/eutils/esearch.fcgi?"
search = paste(url, "db=pubmed&term=", queryTerm1, "+AND+",
queryTerm2,"+OR+",queryTerm3, "+OR+", queryTerm4,
"[abstract]&retmax=100&usehistory=y", sep="")
docId <-
2010 Aug 30
4
getNodeSet - what am I doing wrong?
Hi,
Why is the following retuning a nodset of length 0:
> library(XML)
> test <- xmlTreeParse(
> "http://www.unimod.org/xml/unimod_tables.xml",useInternalNodes=TRUE)
> getNodeSet(test,"//modifications_row")
Thanks for any hint.
Joh
2007 Dec 14
6
Analyzing Publications from Pubmed via XML
I would like to track in which journals articles about a particular disease
are being published. Creating a pubmed search is trivial. The search
provides data but obviously not as an R dataframe. I can get the search to
export the data as an xml feed and the xml package seems to be able to read
it.
xmlTreeParse("
2015 Jun 19
2
Sobre data.table
Mª Luz,
si el comando de Carlos te devuelve 0 es que no hay NA's.
Da igual que tus columnas sean caracteres o número.
Lo que intuyo es que tienes celdas con la frase "NA" que interpretas como NA.
Mandanos el summary de tu data.table y lo vemos...
----- Mensaje original -----
De: "MªLuz Morales" <mlzmrls en gmail.com>
Para: "Carlos J. Gil Bellosta"