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	<title>Comments for Mailund on the Internet</title>
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	<link>http://www.mailund.dk</link>
	<description>Computer science, bioinformatics, genetics, and everything in between</description>
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		<title>Comment on Blind reviews? For or against? by Thomas Mailund</title>
		<link>http://www.mailund.dk/index.php/2012/11/02/blind-reviews-for-or-against/comment-page-1/#comment-27800</link>
		<dc:creator>Thomas Mailund</dc:creator>
		<pubDate>Fri, 02 Nov 2012 14:52:32 +0000</pubDate>
		<guid isPermaLink="false">http://www.mailund.dk/?p=2288#comment-27800</guid>
		<description>Yes, it is a difficult system.  I honestly think that the open reviews would be best, but it only works if we think that people can take constructive criticism.  Of course we know that they can&#039;t :)

I hate to take criticism myself. Of course I do. And while I will complain very vocally about a criticism, if it comes from someone I respect, then once I cool down I will try to address it.  I have found that the best (and most serious) criticisms I have had on papers were actually signed. The reviews that I work the hardest to actually address were signed.

I&#039;m not sure that is because those were the most important issues, but I will spend more time on issues raised by people I respect a lot than anonymous people. 

I don&#039;t buy the black-list idea, and I don&#039;t think it is the way to go.  I know, as an editor, who my reviewers are, and I already blacklist reviewers I don&#039;t trust if they give unreasonable reviews.  I have a bunch of people I really trust and I usually send papers to them and value their opinion a lot more than reviewers I don&#039;t know.

That makes me non objective, I know, but as an editor I can never be objective. I am always subjective, but at least you will know who is making the judgment.  That, I think, is more important than pretending that we are objective.

Nothing wrong with being humans but we shouldn&#039;t pretend otherwise.

As for bad feelings about bad reviews, I am sure that is an issue. It can&#039;t be that different from giving a bad grad to a close friend at an exam, and we have both done that.  I might even have given you a bad grade, although I only remember giving you better grades than you probably deserve just because you are so cute in a kilt ;)</description>
		<content:encoded><![CDATA[<p>Yes, it is a difficult system.  I honestly think that the open reviews would be best, but it only works if we think that people can take constructive criticism.  Of course we know that they can't :)</p>
<p>I hate to take criticism myself. Of course I do. And while I will complain very vocally about a criticism, if it comes from someone I respect, then once I cool down I will try to address it.  I have found that the best (and most serious) criticisms I have had on papers were actually signed. The reviews that I work the hardest to actually address were signed.</p>
<p>I'm not sure that is because those were the most important issues, but I will spend more time on issues raised by people I respect a lot than anonymous people. </p>
<p>I don't buy the black-list idea, and I don't think it is the way to go.  I know, as an editor, who my reviewers are, and I already blacklist reviewers I don't trust if they give unreasonable reviews.  I have a bunch of people I really trust and I usually send papers to them and value their opinion a lot more than reviewers I don't know.</p>
<p>That makes me non objective, I know, but as an editor I can never be objective. I am always subjective, but at least you will know who is making the judgment.  That, I think, is more important than pretending that we are objective.</p>
<p>Nothing wrong with being humans but we shouldn't pretend otherwise.</p>
<p>As for bad feelings about bad reviews, I am sure that is an issue. It can't be that different from giving a bad grad to a close friend at an exam, and we have both done that.  I might even have given you a bad grade, although I only remember giving you better grades than you probably deserve just because you are so cute in a kilt ;)</p>
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		<title>Comment on Blind reviews? For or against? by Michael</title>
		<link>http://www.mailund.dk/index.php/2012/11/02/blind-reviews-for-or-against/comment-page-1/#comment-27799</link>
		<dc:creator>Michael</dc:creator>
		<pubDate>Fri, 02 Nov 2012 14:38:35 +0000</pubDate>
		<guid isPermaLink="false">http://www.mailund.dk/?p=2288#comment-27799</guid>
		<description>I really like the idea of open reviews.  I&#039;m having severe problems with getting reviews we like to qualify as &quot;weak accept, high confidence, one-liners&quot;, where the review just restates the title and obviously the reviewer has spent at most 10 minutes on the paper.

This leads me to thinking that open reviews are necessary.  This can also lead to an inflation of grades, where weak accept means reject and only strong accept meaning accept because people are afraid to sign negative reviews.

I like the emerging trend of not only awarding the best paper at conferences, but also the best review.  Those are also dangerous, because they reveal the reviewer to the author, and best review is not given for the best paper (after all if it&#039;s a good paper, it will get brief reviews saying it is good).

Meta-reviewers help, but for the exact same reason not always enough.

It should be possible to grade reviews and have the PC/editor black-list bad reviewers.  To some extent it should already happen, but doesn&#039;t in my experience.  Being banned as a reviewer should of course also ban you as an author, as you cannot &quot;repay&quot; the reviews you get for your papers.  I think that is a better middle-way solution than forcing open reviews.</description>
		<content:encoded><![CDATA[<p>I really like the idea of open reviews.  I'm having severe problems with getting reviews we like to qualify as "weak accept, high confidence, one-liners", where the review just restates the title and obviously the reviewer has spent at most 10 minutes on the paper.</p>
<p>This leads me to thinking that open reviews are necessary.  This can also lead to an inflation of grades, where weak accept means reject and only strong accept meaning accept because people are afraid to sign negative reviews.</p>
<p>I like the emerging trend of not only awarding the best paper at conferences, but also the best review.  Those are also dangerous, because they reveal the reviewer to the author, and best review is not given for the best paper (after all if it's a good paper, it will get brief reviews saying it is good).</p>
<p>Meta-reviewers help, but for the exact same reason not always enough.</p>
<p>It should be possible to grade reviews and have the PC/editor black-list bad reviewers.  To some extent it should already happen, but doesn't in my experience.  Being banned as a reviewer should of course also ban you as an author, as you cannot "repay" the reviews you get for your papers.  I think that is a better middle-way solution than forcing open reviews.</p>
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		<title>Comment on Building a database of CoalHMM results by John Major</title>
		<link>http://www.mailund.dk/index.php/2009/03/25/building-a-database-of-coalhmm-results/comment-page-1/#comment-27219</link>
		<dc:creator>John Major</dc:creator>
		<pubDate>Fri, 19 Aug 2011 16:35:39 +0000</pubDate>
		<guid isPermaLink="false">http://www.mailund.dk/?p=1103#comment-27219</guid>
		<description>I&#039;m coming back to querying huge sets of features on the human genome... and am wondering if anyone has seen benchmarks between querying spatial indexed data vs. indexed VCF files?

Before I go and run these tests, figured I&#039;d poke this old thread -- (and might have results to post soon)

john</description>
		<content:encoded><![CDATA[<p>I'm coming back to querying huge sets of features on the human genome... and am wondering if anyone has seen benchmarks between querying spatial indexed data vs. indexed VCF files?</p>
<p>Before I go and run these tests, figured I'd poke this old thread -- (and might have results to post soon)</p>
<p>john</p>
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		<title>Comment on Virgins by apaipi</title>
		<link>http://www.mailund.dk/index.php/2011/02/06/virgins/comment-page-1/#comment-27028</link>
		<dc:creator>apaipi</dc:creator>
		<pubDate>Wed, 25 May 2011 04:48:34 +0000</pubDate>
		<guid isPermaLink="false">http://www.mailund.dk/?p=2275#comment-27028</guid>
		<description>LOL!

&quot;Howcome, when it comes to sex, not knowing what the hell you are doing is a virtue?&quot; Because then they don&#039;t know what the hell their partner is doing either, and thus their partner can afford to be lousy :-) Which must be why some people like to get in bed with virgins?</description>
		<content:encoded><![CDATA[<p>LOL!</p>
<p>"Howcome, when it comes to sex, not knowing what the hell you are doing is a virtue?" Because then they don't know what the hell their partner is doing either, and thus their partner can afford to be lousy :-) Which must be why some people like to get in bed with virgins?</p>
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		<title>Comment on Association mapping and local genealogies by Thomas Mailund</title>
		<link>http://www.mailund.dk/index.php/2008/02/27/association-mapping-and-local-genealogies/comment-page-1/#comment-27008</link>
		<dc:creator>Thomas Mailund</dc:creator>
		<pubDate>Sun, 15 May 2011 11:28:33 +0000</pubDate>
		<guid isPermaLink="false">http://www.mailund.dk/?p=109#comment-27008</guid>
		<description>This post is a bit dated already on GWAS, but there is a book chapter coming out soon from Springer that I have contributed to that you might find interesting.</description>
		<content:encoded><![CDATA[<p>This post is a bit dated already on GWAS, but there is a book chapter coming out soon from Springer that I have contributed to that you might find interesting.</p>
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		<title>Comment on Associate editor of BMC Research Notes by Thomas Mailund</title>
		<link>http://www.mailund.dk/index.php/2008/03/11/associate-editor-of-bmc-research-notes/comment-page-1/#comment-27007</link>
		<dc:creator>Thomas Mailund</dc:creator>
		<pubDate>Sun, 15 May 2011 11:26:45 +0000</pubDate>
		<guid isPermaLink="false">http://www.mailund.dk/index.php/2008/03/11/associate-editor-of-bmc-research-notes/#comment-27007</guid>
		<description>Barbara: I have no idea if the journal is tracked.  I&#039;m not too keen on the whole Impact Factor idea to begin with, so I don&#039;t much care.</description>
		<content:encoded><![CDATA[<p>Barbara: I have no idea if the journal is tracked.  I'm not too keen on the whole Impact Factor idea to begin with, so I don't much care.</p>
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		<title>Comment on Association mapping and local genealogies by Suresh kumar</title>
		<link>http://www.mailund.dk/index.php/2008/02/27/association-mapping-and-local-genealogies/comment-page-1/#comment-26970</link>
		<dc:creator>Suresh kumar</dc:creator>
		<pubDate>Mon, 25 Apr 2011 13:58:15 +0000</pubDate>
		<guid isPermaLink="false">http://www.mailund.dk/?p=109#comment-26970</guid>
		<description>ANd if the source are available at PDF format too, very helpful.</description>
		<content:encoded><![CDATA[<p>ANd if the source are available at PDF format too, very helpful.</p>
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		<title>Comment on Association mapping and local genealogies by Suresh kumar</title>
		<link>http://www.mailund.dk/index.php/2008/02/27/association-mapping-and-local-genealogies/comment-page-1/#comment-26969</link>
		<dc:creator>Suresh kumar</dc:creator>
		<pubDate>Mon, 25 Apr 2011 13:55:15 +0000</pubDate>
		<guid isPermaLink="false">http://www.mailund.dk/?p=109#comment-26969</guid>
		<description>Fantastic resource, thanks alot, i feel still if u put a sample of study, kind of tutorial which includes the statistical tests for single marker and multiplee SNP testing for association study. Its fantastic source</description>
		<content:encoded><![CDATA[<p>Fantastic resource, thanks alot, i feel still if u put a sample of study, kind of tutorial which includes the statistical tests for single marker and multiplee SNP testing for association study. Its fantastic source</p>
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		<title>Comment on Newick C++ parser in Boost.Spirit by Thomas Mailund</title>
		<link>http://www.mailund.dk/index.php/2008/10/03/newick-c-parser-in-boostspirit/comment-page-1/#comment-26968</link>
		<dc:creator>Thomas Mailund</dc:creator>
		<pubDate>Mon, 25 Apr 2011 03:29:30 +0000</pubDate>
		<guid isPermaLink="false">http://www.mailund.dk/?p=443#comment-26968</guid>
		<description>No problem, you are welcome (as long as you don&#039;t blame me if there is problems with it) :)</description>
		<content:encoded><![CDATA[<p>No problem, you are welcome (as long as you don't blame me if there is problems with it) :)</p>
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		<title>Comment on Newick C++ parser in Boost.Spirit by Emmanuel Teisaire</title>
		<link>http://www.mailund.dk/index.php/2008/10/03/newick-c-parser-in-boostspirit/comment-page-1/#comment-26965</link>
		<dc:creator>Emmanuel Teisaire</dc:creator>
		<pubDate>Sat, 23 Apr 2011 14:59:55 +0000</pubDate>
		<guid isPermaLink="false">http://www.mailund.dk/?p=443#comment-26965</guid>
		<description>Hi, I&#039;d like to use your parser for a non comercial phylogenetic project. It&#039;s for a foundation called FUDEPAN. It is just what we need so it&#039;ll save us some time. Thanks a lot!</description>
		<content:encoded><![CDATA[<p>Hi, I'd like to use your parser for a non comercial phylogenetic project. It's for a foundation called FUDEPAN. It is just what we need so it'll save us some time. Thanks a lot!</p>
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