How do I download all the abstract datas from the pubmed data ncbi

I want to download all the pubmed data abstracts. Does anyone know how I can easily download all of the pubmed article abstracts?

I got the source of the data : ftp://ftp.ncbi.nlm.nih.gov/pub/pmc/af/12/

Is there anyway to download all these tar files..

Thanks in advance.

Solution

There is a package called rentrezhttps://ropensci.org/packages/. Check this out. You can retrieve abstracts by specific keywords or PMID etc. I hope it helps.

UPDATE: You can download all the abstracts by passing your list of IDS with the following code.

    library(rentrez)
    library(xml)

your.ids <- c("26386083","26273372","26066373","25837167","25466451","25013473")
# rentrez function to get the data from pubmed db
fetch.pubmed <- entrez_fetch(db = "pubmed", id = your.ids,
                      rettype = "xml", parsed = T)
# Extract the Abstracts for the respective IDS.  
abstracts = xpathApply(fetch.pubmed, '//PubmedArticle//Article', function(x)
                               xmlValue(xmlChildren(x)$Abstract))
# Change the abstract names with the IDS.
names(abstracts) <- your.ids
abstracts
col.abstracts <- do.call(rbind.data.frame,abstracts)
dim(col.abstracts)
write.csv(col.abstracts, file = "test.csv")