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	<title>Comments on: &quot;Mannian&quot; PCA Revisited #1</title>
	<atom:link href="http://climateaudit.org/2008/03/10/mannian-pca-revisited-1/feed/" rel="self" type="application/rss+xml" />
	<link>http://climateaudit.org/2008/03/10/mannian-pca-revisited-1/</link>
	<description>by Steve McIntyre</description>
	<lastBuildDate>Fri, 24 May 2013 14:58:09 +0000</lastBuildDate>
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		<title>By: UC</title>
		<link>http://climateaudit.org/2008/03/10/mannian-pca-revisited-1/#comment-140131</link>
		<dc:creator><![CDATA[UC]]></dc:creator>
		<pubDate>Fri, 14 Mar 2008 15:44:45 +0000</pubDate>
		<guid isPermaLink="false">http://www.climateaudit.org/?p=2841#comment-140131</guid>
		<description><![CDATA[Mark T



&lt;blockquote&gt;Perhaps the DC bias prior to 1400, such as during the MWP, which coincidentally shows up in most of the proxies (as I recall), would cause problems for the “warmest in a milluuuuun years” claim?
&lt;/blockquote&gt;


Or lack of long-term cooling trend might be the reason, who knows ;)]]></description>
		<content:encoded><![CDATA[<p>Mark T</p>
<blockquote><p>Perhaps the DC bias prior to 1400, such as during the MWP, which coincidentally shows up in most of the proxies (as I recall), would cause problems for the “warmest in a milluuuuun years” claim?
</p></blockquote>
<p>Or lack of long-term cooling trend might be the reason, who knows <img src='http://s1.wp.com/wp-includes/images/smilies/icon_wink.gif' alt=';)' class='wp-smiley' /> </p>
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		<title>By: Ade</title>
		<link>http://climateaudit.org/2008/03/10/mannian-pca-revisited-1/#comment-140130</link>
		<dc:creator><![CDATA[Ade]]></dc:creator>
		<pubDate>Thu, 13 Mar 2008 22:21:36 +0000</pubDate>
		<guid isPermaLink="false">http://www.climateaudit.org/?p=2841#comment-140130</guid>
		<description><![CDATA[#57: Thanks Steve, I guess until Mann actually comes clean about exactly what data &amp; methods he used, we shall never know....]]></description>
		<content:encoded><![CDATA[<p>#57: Thanks Steve, I guess until Mann actually comes clean about exactly what data &amp; methods he used, we shall never know&#8230;.</p>
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		<title>By: Vincent</title>
		<link>http://climateaudit.org/2008/03/10/mannian-pca-revisited-1/#comment-140129</link>
		<dc:creator><![CDATA[Vincent]]></dc:creator>
		<pubDate>Thu, 13 Mar 2008 13:55:13 +0000</pubDate>
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		<description><![CDATA[Preisendorfer 1988

&lt;blockquote&gt;The premise of a physical system ...... of &lt;strong&gt;linear &lt;/strong&gt;ordinary or of &lt;strong&gt;linear &lt;/strong&gt;partial differential equations &lt;/blockquote&gt;

Tree ring response to temperature can hardly be described as &quot;linear&quot;. I would think &quot;parabolic&quot; is more apt.... The pretext for using Preisendorfer seems to collapse from the outset.]]></description>
		<content:encoded><![CDATA[<p>Preisendorfer 1988</p>
<blockquote><p>The premise of a physical system &#8230;&#8230; of <strong>linear </strong>ordinary or of <strong>linear </strong>partial differential equations </p></blockquote>
<p>Tree ring response to temperature can hardly be described as &#8220;linear&#8221;. I would think &#8220;parabolic&#8221; is more apt&#8230;. The pretext for using Preisendorfer seems to collapse from the outset.</p>
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		<title>By: Steve McIntyre</title>
		<link>http://climateaudit.org/2008/03/10/mannian-pca-revisited-1/#comment-140128</link>
		<dc:creator><![CDATA[Steve McIntyre]]></dc:creator>
		<pubDate>Thu, 13 Mar 2008 13:03:36 +0000</pubDate>
		<guid isPermaLink="false">http://www.climateaudit.org/?p=2841#comment-140128</guid>
		<description><![CDATA[#56. The problems are multi-layered. No one knows for sure what Mann knew about his method.  There are issues relating to the application of correct PC methods to tree ring data sets.  These problems are made worse by the erroneous Mannian method.

With 20-20 hindsight, it would have been possible for Mann to have used a PC method which was less bad - in which case the issue would be squarely on the validity of applying conventional principal components to the North American tree ring data set as a means of obtaining a temperature proxy - which has never been established - and of the validity of bristlecones.

Think of a murder victim with multiple stab wounds. The police arrest the husband and can prove that he stabbed his wife repeatedly and charge him with murdering his wife by stabbing her to death. Let&#039;s now suppose that his defence is that he had already smothered his wife to death and the stabbing took place into her dead body so the claim that he murdered her by stabbing her to death was wrong.  As I understand it, the count could be amended and the accused would not go free on such a technicality.

Mann applied PC methodology applied to a tree ring network with multiple bristlecones.  Trying to find the &quot;real&quot; problem in such a mess is like a complicate episode in CSI.  The bristlecones are one problem; applying ordinary PCA to tree ring networks is another problem; Mannian PCA is another problem.  Removing bristlecones from this nbetwork doesn&#039;t necessarily improve things at all. I&#039;m not saying that there&#039;s a &quot;right&quot; way to get an answer out of this mess.]]></description>
		<content:encoded><![CDATA[<p>#56. The problems are multi-layered. No one knows for sure what Mann knew about his method.  There are issues relating to the application of correct PC methods to tree ring data sets.  These problems are made worse by the erroneous Mannian method.</p>
<p>With 20-20 hindsight, it would have been possible for Mann to have used a PC method which was less bad &#8211; in which case the issue would be squarely on the validity of applying conventional principal components to the North American tree ring data set as a means of obtaining a temperature proxy &#8211; which has never been established &#8211; and of the validity of bristlecones.</p>
<p>Think of a murder victim with multiple stab wounds. The police arrest the husband and can prove that he stabbed his wife repeatedly and charge him with murdering his wife by stabbing her to death. Let&#8217;s now suppose that his defence is that he had already smothered his wife to death and the stabbing took place into her dead body so the claim that he murdered her by stabbing her to death was wrong.  As I understand it, the count could be amended and the accused would not go free on such a technicality.</p>
<p>Mann applied PC methodology applied to a tree ring network with multiple bristlecones.  Trying to find the &#8220;real&#8221; problem in such a mess is like a complicate episode in CSI.  The bristlecones are one problem; applying ordinary PCA to tree ring networks is another problem; Mannian PCA is another problem.  Removing bristlecones from this nbetwork doesn&#8217;t necessarily improve things at all. I&#8217;m not saying that there&#8217;s a &#8220;right&#8221; way to get an answer out of this mess.</p>
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		<title>By: Ade</title>
		<link>http://climateaudit.org/2008/03/10/mannian-pca-revisited-1/#comment-140127</link>
		<dc:creator><![CDATA[Ade]]></dc:creator>
		<pubDate>Thu, 13 Mar 2008 10:01:25 +0000</pubDate>
		<guid isPermaLink="false">http://www.climateaudit.org/?p=2841#comment-140127</guid>
		<description><![CDATA[I&#039;m confused (not difficult!), and not being a statistician is not helping...

There is much talk of the bristlecones being overweighted, that I understand &amp; hence the reason the hockey stick appears - what I don&#039;t quite get is &lt;b&gt;how&lt;/b&gt; the weightings get to be where they are. Is it a deliberate choice by Mann et al, or is it some artifact of PCA analysis which up-weights certain datasets &quot;automagically&quot;?

(Apologies if this is a dumb question, or is answered elsewhere)

&lt;]]></description>
		<content:encoded><![CDATA[<p>I&#8217;m confused (not difficult!), and not being a statistician is not helping&#8230;</p>
<p>There is much talk of the bristlecones being overweighted, that I understand &amp; hence the reason the hockey stick appears &#8211; what I don&#8217;t quite get is <b>how</b> the weightings get to be where they are. Is it a deliberate choice by Mann et al, or is it some artifact of PCA analysis which up-weights certain datasets &#8220;automagically&#8221;?</p>
<p>(Apologies if this is a dumb question, or is answered elsewhere)</p>
<p>&lt;</p>
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		<title>By: mccall</title>
		<link>http://climateaudit.org/2008/03/10/mannian-pca-revisited-1/#comment-140126</link>
		<dc:creator><![CDATA[mccall]]></dc:creator>
		<pubDate>Wed, 12 Mar 2008 06:51:23 +0000</pubDate>
		<guid isPermaLink="false">http://www.climateaudit.org/?p=2841#comment-140126</guid>
		<description><![CDATA[re: 30
5) &lt;b&gt;R&lt;/b&gt;E vs. other correlation coef&#039;s such as R2 (CE wasn&#039;t determined and therefore not an issue)]]></description>
		<content:encoded><![CDATA[<p>re: 30<br />
5) <b>R</b>E vs. other correlation coef&#8217;s such as R2 (CE wasn&#8217;t determined and therefore not an issue)</p>
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		<title>By: Geoff Sherrington</title>
		<link>http://climateaudit.org/2008/03/10/mannian-pca-revisited-1/#comment-140125</link>
		<dc:creator><![CDATA[Geoff Sherrington]]></dc:creator>
		<pubDate>Wed, 12 Mar 2008 00:48:32 +0000</pubDate>
		<guid isPermaLink="false">http://www.climateaudit.org/?p=2841#comment-140125</guid>
		<description><![CDATA[In a way, this should never have got to the point of statistics, except to probe for their applicability.

In # 36 above I mentioned that temperature of trees and wind direction confounded. The tree is a living system with cycles of growth and rest that are impacted by temperature. There are times when a short blast of hot or cold out of season can limit or help growth for a year or more.

Analogy: People need to drink water to avoid getting ill/dying. Over a month, one might drink a similar volume each day; or to argue by extreme, could drink at twice this rate in the first fortnight and drink nothing in last fortnight. Monthly average remains the same, conseqence is reduced growth, maybe permanently.

Same with trees. Growth is affected not just by the average value of monthly temperature, but also by the distribution pattern of temperatures within each month. If the calibration period cannot infill the fine structure, the stats will not be capable of reconstructing the past.

Having taken very rare trees from China to Australia, I know a little about coping wih seasonal changes (NH to SH in a day), so my comment contains practical as well as theory. Is that so novel?]]></description>
		<content:encoded><![CDATA[<p>In a way, this should never have got to the point of statistics, except to probe for their applicability.</p>
<p>In # 36 above I mentioned that temperature of trees and wind direction confounded. The tree is a living system with cycles of growth and rest that are impacted by temperature. There are times when a short blast of hot or cold out of season can limit or help growth for a year or more.</p>
<p>Analogy: People need to drink water to avoid getting ill/dying. Over a month, one might drink a similar volume each day; or to argue by extreme, could drink at twice this rate in the first fortnight and drink nothing in last fortnight. Monthly average remains the same, conseqence is reduced growth, maybe permanently.</p>
<p>Same with trees. Growth is affected not just by the average value of monthly temperature, but also by the distribution pattern of temperatures within each month. If the calibration period cannot infill the fine structure, the stats will not be capable of reconstructing the past.</p>
<p>Having taken very rare trees from China to Australia, I know a little about coping wih seasonal changes (NH to SH in a day), so my comment contains practical as well as theory. Is that so novel?</p>
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		<title>By: Sam Urbinto</title>
		<link>http://climateaudit.org/2008/03/10/mannian-pca-revisited-1/#comment-140124</link>
		<dc:creator><![CDATA[Sam Urbinto]]></dc:creator>
		<pubDate>Tue, 11 Mar 2008 19:04:45 +0000</pubDate>
		<guid isPermaLink="false">http://www.climateaudit.org/?p=2841#comment-140124</guid>
		<description><![CDATA[What Jeremy said.]]></description>
		<content:encoded><![CDATA[<p>What Jeremy said.</p>
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		<title>By: Jeremy</title>
		<link>http://climateaudit.org/2008/03/10/mannian-pca-revisited-1/#comment-140123</link>
		<dc:creator><![CDATA[Jeremy]]></dc:creator>
		<pubDate>Tue, 11 Mar 2008 18:52:35 +0000</pubDate>
		<guid isPermaLink="false">http://www.climateaudit.org/?p=2841#comment-140123</guid>
		<description><![CDATA[If I were a mathematician, I would say the lack of a gridded data set representing a physical system governed by equations that can be analytically solved invalidates the entire use of PCA methodology in the analysis of any climate data. Mathematicians are sticklers for proper use of methods, and rightly so. They are the &quot;grammar&quot; [enforcers]  of the scientific world.

The reasoning is simple. You have no gridded surface data for temperature or rainfall or any weather phenomena, you have scattered stations around the globe and nearly nothing on the ocean. With satellite data you at least have a grid, but the physicist in me says good luck finding an equation that can represent the physical reality you&#039;re collecting data from. In too-simple terms, no boundary conditions = no understanding of what&#039;s going on.]]></description>
		<content:encoded><![CDATA[<p>If I were a mathematician, I would say the lack of a gridded data set representing a physical system governed by equations that can be analytically solved invalidates the entire use of PCA methodology in the analysis of any climate data. Mathematicians are sticklers for proper use of methods, and rightly so. They are the &#8220;grammar&#8221; [enforcers]  of the scientific world.</p>
<p>The reasoning is simple. You have no gridded surface data for temperature or rainfall or any weather phenomena, you have scattered stations around the globe and nearly nothing on the ocean. With satellite data you at least have a grid, but the physicist in me says good luck finding an equation that can represent the physical reality you&#8217;re collecting data from. In too-simple terms, no boundary conditions = no understanding of what&#8217;s going on.</p>
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		<title>By: Mark T.</title>
		<link>http://climateaudit.org/2008/03/10/mannian-pca-revisited-1/#comment-140122</link>
		<dc:creator><![CDATA[Mark T.]]></dc:creator>
		<pubDate>Tue, 11 Mar 2008 17:48:10 +0000</pubDate>
		<guid isPermaLink="false">http://www.climateaudit.org/?p=2841#comment-140122</guid>
		<description><![CDATA[&lt;blockquote&gt;My read of what Steve and Ross (and others here) have done is point out that PC1 or the HS factor is a characteristic of group of respondents (the BCPs) and not the underlying temperature signal.
Is this a correct interpretation?&lt;/blockquote&gt;
If you amend that to &lt;em&gt;may not be the underlying temperature signal&lt;/em&gt; then yes, your interpretation is correct.  This is confounded by the fact that the HS signal is predominantly present in BCPs, which end up getting weighted heavier than other proxies.  Whether or not it is truly temperature is hard to say without removing other factors that may be contributing to their shape, too.  PCA does not assign a &quot;flag&quot; to the results indicating which is which, and when multiple inputs to the system (e.g. solar, precipitation, CO2 fertilization) are correlated, disaggregation is even more difficult (if not outright impossible).

The short answer is that the &quot;signal&quot; that shows up is &lt;em&gt;assumed&lt;/em&gt; to be temperature simply because the surface temperature readings are increasing at the same time, and the BCPs are &lt;em&gt;assumed&lt;/em&gt; to be responding to temperature, not other factors.  That BCPs will necessarily respond to local temperatures, not global temperatures, is lost on the proponents of the proxy reconstruction theory (via PCA), btw.

Mark]]></description>
		<content:encoded><![CDATA[<blockquote><p>My read of what Steve and Ross (and others here) have done is point out that PC1 or the HS factor is a characteristic of group of respondents (the BCPs) and not the underlying temperature signal.<br />
Is this a correct interpretation?</p></blockquote>
<p>If you amend that to <em>may not be the underlying temperature signal</em> then yes, your interpretation is correct.  This is confounded by the fact that the HS signal is predominantly present in BCPs, which end up getting weighted heavier than other proxies.  Whether or not it is truly temperature is hard to say without removing other factors that may be contributing to their shape, too.  PCA does not assign a &#8220;flag&#8221; to the results indicating which is which, and when multiple inputs to the system (e.g. solar, precipitation, CO2 fertilization) are correlated, disaggregation is even more difficult (if not outright impossible).</p>
<p>The short answer is that the &#8220;signal&#8221; that shows up is <em>assumed</em> to be temperature simply because the surface temperature readings are increasing at the same time, and the BCPs are <em>assumed</em> to be responding to temperature, not other factors.  That BCPs will necessarily respond to local temperatures, not global temperatures, is lost on the proponents of the proxy reconstruction theory (via PCA), btw.</p>
<p>Mark</p>
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