{"action":"created","issue":{"url":"https://api.github.com/repos/ropensci/rentrez/issues/55","labels_url":"https://api.github.com/repos/ropensci/rentrez/issues/55/labels{/name}","comments_url":"https://api.github.com/repos/ropensci/rentrez/issues/55/comments","events_url":"https://api.github.com/repos/ropensci/rentrez/issues/55/events","html_url":"https://github.com/ropensci/rentrez/issues/55","id":103044228,"number":55,"title":"entrez_search usage","user":{"login":"Monty9","id":13947738,"avatar_url":"https://avatars.githubusercontent.com/u/13947738?v=3","gravatar_id":"","url":"https://api.github.com/users/Monty9","html_url":"https://github.com/Monty9","followers_url":"https://api.github.com/users/Monty9/followers","following_url":"https://api.github.com/users/Monty9/following{/other_user}","gists_url":"https://api.github.com/users/Monty9/gists{/gist_id}","starred_url":"https://api.github.com/users/Monty9/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/Monty9/subscriptions","organizations_url":"https://api.github.com/users/Monty9/orgs","repos_url":"https://api.github.com/users/Monty9/repos","events_url":"https://api.github.com/users/Monty9/events{/privacy}","received_events_url":"https://api.github.com/users/Monty9/received_events","type":"User","site_admin":false},"labels":[{"url":"https://api.github.com/repos/ropensci/rentrez/labels/questions","name":"questions","color":"eb6420"},{"url":"https://api.github.com/repos/ropensci/rentrez/labels/use-cases","name":"use-cases","color":"207de5"}],"state":"open","locked":false,"assignee":null,"milestone":null,"comments":9,"created_at":"2015-08-25T15:11:42Z","updated_at":"2015-09-03T18:13:14Z","closed_at":null,"body":"Hi David Winter,\r\nThank you for the amazhing entrez package. \r\n1) How to input filters in entrez_search funtion ? For instance, When we  search pubmed online for BRAF AND LUNG, it results in some summary hits. On the left hand side of the page, we can select article types, text availability year of publication,  species and so on. Selecting one of these helps to filter the summary output further. How do I input these parameters in entrez_search function ?  \r\n\r\n2) When we extract citation information for particular article ( Eg: Cited by 48 PubMed Central articles). Why is the count different from google scholar citations ?  \r\n\r\n3) How do we extract the links for the articles we fetched from pubmed using rentrez ? For Eg. I am trying to make a dataframe for the feteched pubmed abstracts, I would like to inluce a hyperlink in  one column so that, user can click on the hyperlink that opens the fulltext or the abstract. \r\n\r\n4) Finally, is there a way impact factor of the journal be extracted from NCBI. Not sure, If I saw impact factor listed in NCBI in general. If you are aware of an other packages that help to do so, please let me know. I am trying to create a table with NCBI abstract info, impact factor of journal and the link to the journal full text. \r\n\r\nThank you very much"},"comment":{"url":"https://api.github.com/repos/ropensci/rentrez/issues/comments/137532027","html_url":"https://github.com/ropensci/rentrez/issues/55#issuecomment-137532027","issue_url":"https://api.github.com/repos/ropensci/rentrez/issues/55","id":137532027,"user":{"login":"dwinter","id":103573,"avatar_url":"https://avatars.githubusercontent.com/u/103573?v=3","gravatar_id":"","url":"https://api.github.com/users/dwinter","html_url":"https://github.com/dwinter","followers_url":"https://api.github.com/users/dwinter/followers","following_url":"https://api.github.com/users/dwinter/following{/other_user}","gists_url":"https://api.github.com/users/dwinter/gists{/gist_id}","starred_url":"https://api.github.com/users/dwinter/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/dwinter/subscriptions","organizations_url":"https://api.github.com/users/dwinter/orgs","repos_url":"https://api.github.com/users/dwinter/repos","events_url":"https://api.github.com/users/dwinter/events{/privacy}","received_events_url":"https://api.github.com/users/dwinter/received_events","type":"User","site_admin":false},"created_at":"2015-09-03T18:13:14Z","updated_at":"2015-09-03T18:13:14Z","body":"Hi Monty.\n\nIt is, but you will need to fetch an esummary record for each paper.\n\nSo, for instance, you could do\n\n```r\npapers <- entrez_search(db=\"pubmed\", term=\"cancer\", retmax=10)\npsumms  <- entrez_summary(db=\"pubmed\", id=papers$ids)\nextract_from_esummary(psumms, c(\"essn\", \"issn\"))\n```\n```\n     26327059    26326800    26326526    26325687    26325678    26325675\nessn \"1534-7362\" \"1534-7362\" \"1534-7362\" \"1932-6203\" \"1932-6203\" \"1932-6203\"\nissn \"\"          \"\"          \"\"          \"\"          \"\"          \"\"\n     26325671    26325670    26325669    26325646\nessn \"1465-3931\" \"1465-3931\" \"1949-2553\" \"\"\nissn \"0031-3025\" \"0031-3025\" \"\"          \"0363-6771\"\n\n```\n\nI do'nt know what the different between an essn and issn is, but perhaps\none or the other will match your tables?\n\nOn Thu, Sep 3, 2015 at 10:53 AM, Monty9 <notifications@github.com> wrote:\n\n> Hi david,\n> Is it possible to extract ISSN number of journal in rentrez package ? I am\n> trying macth the journal name against a dataframe with journal name and\n> impact factor. Unfortunately, the journal name is not consistently\n> abbreviated, so merge function results in NA. Hence, I thoght probably\n> ISSN number will be unique and so helps me in matching exact journal and\n> the impact factor.\n> Thank you\n>\n> —\n> Reply to this email directly or view it on GitHub\n> <https://github.com/ropensci/rentrez/issues/55#issuecomment-137527409>.\n>\n\n\n\n-- \nDavid Winter\nPostdoctoral Research Associate\nCenter for Evolutionary Medicine and Informatics\nThe Biodesign Institute\nArizona State University\n\nph: +1 480 519 5113\nw: www.david-winter.info\nlab: http://cartwrig.ht/lab/\nblog: sciblogs.co.nz/the-atavism\n"}}