Calculating time from submission to publication / Degree of burden in submitting a paper

2012-10-12T10:40:12Z (GMT) by Pierre Lindenbaum Ryan Delahanty
<p>Inspied by this post on biostar: <a href="http://www.biostars.org/post/show/54473/calculating-time-from-submission-to-publication-degree-of-burden-in-submitting-a-paper/">http://www.biostars.org/post/show/54473/calculating-time-from-submission-to-publication-degree-of-burden-in-submitting-a-paper/</a> initialy asked by Ryan Delahanty</p> <p> </p> <p>the script 'pubmed.sh" downloads the the journals from <a href="http://www.ncbi.nlm.nih.gov/books/NBK3827/table/pubmedhelp.pubmedhelptable45/">http://www.ncbi.nlm.nih.gov/books/NBK3827/table/pubmedhelp.pubmedhelptable45/</a> , the 'eignefactors'  from <a href="http://www.eigenfactor.org">http://www.eigenfactor.org</a></p> <p>for each journal , It scans pubmed (starting from year=2000) and get the difference between the date(submitted) and the date(accepted). The code for the java program used to download pubmed is available here: <a href="https://github.com/lindenb/jsandbox/blob/master/src/sandbox/PubmedDump.java">https://github.com/lindenb/jsandbox/blob/master/src/sandbox/PubmedDump.java</a></p> <p> </p> <p>Note: pubmed contains some errors: e.g. submitted > accepted (<a href="http://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=pubmed&id=20591334&retmode=xml">http://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=pubmed&id=20591334&retmode=xml</a>) or some dates in the future: ( <a href="http://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=pubmed&id=12921703&retmode=xml">http://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=pubmed&id=12921703&retmode=xml</a> )</p> <p> </p> <p> </p>
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