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	<title>Ryan&#039;s Blog</title>
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	<link>http://ryanmlayer.wordpress.com</link>
	<description>things I find helpful</description>
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		<title>Ryan&#039;s Blog</title>
		<link>http://ryanmlayer.wordpress.com</link>
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		<item>
		<title>Latex scientific notation, made easy</title>
		<link>http://ryanmlayer.wordpress.com/2012/01/13/latex-scientific-notation-made-easy/</link>
		<comments>http://ryanmlayer.wordpress.com/2012/01/13/latex-scientific-notation-made-easy/#comments</comments>
		<pubDate>Fri, 13 Jan 2012 14:26:36 +0000</pubDate>
		<dc:creator>ryanlayer</dc:creator>
				<category><![CDATA[latex]]></category>

		<guid isPermaLink="false">http://ryanmlayer.wordpress.com/?p=207</guid>
		<description><![CDATA[\providecommand{\e}[1]{\ensuremath{\times 10^{#1}}} Then, typing The [111] crystal planes are 3.2\e{-10} m apart. http://www.tapdancinggoats.com/easy-scientific-notation-in-latex.htm<img alt="" border="0" src="http://stats.wordpress.com/b.gif?host=ryanmlayer.wordpress.com&amp;blog=9680382&amp;post=207&amp;subd=ryanmlayer&amp;ref=&amp;feed=1" width="1" height="1" />]]></description>
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			<media:title type="html">ryanlayer</media:title>
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		<title>R plot magic</title>
		<link>http://ryanmlayer.wordpress.com/2012/01/12/r-plot-magic/</link>
		<comments>http://ryanmlayer.wordpress.com/2012/01/12/r-plot-magic/#comments</comments>
		<pubDate>Thu, 12 Jan 2012 21:52:20 +0000</pubDate>
		<dc:creator>ryanlayer</dc:creator>
				<category><![CDATA[Uncategorized]]></category>

		<guid isPermaLink="false">http://ryanmlayer.wordpress.com/?p=205</guid>
		<description><![CDATA[To move the axis labels/lines: par(mpg=c(, , )) default is mpg=c(3,1,0), but mgp=c(1.75, 0.5, 0) works To move margins: par(mar=c(,,,)) default is mar=c(5,4,4,2)+0.1, but mar=c(3,3,0,0)+0.1 works<img alt="" border="0" src="http://stats.wordpress.com/b.gif?host=ryanmlayer.wordpress.com&amp;blog=9680382&amp;post=205&amp;subd=ryanmlayer&amp;ref=&amp;feed=1" width="1" height="1" />]]></description>
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			<media:title type="html">ryanlayer</media:title>
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		<item>
		<title>Using awk to randomly sample a file</title>
		<link>http://ryanmlayer.wordpress.com/2012/01/06/using-awk-to-randomly-sample-a-file/</link>
		<comments>http://ryanmlayer.wordpress.com/2012/01/06/using-awk-to-randomly-sample-a-file/#comments</comments>
		<pubDate>Fri, 06 Jan 2012 13:48:18 +0000</pubDate>
		<dc:creator>ryanlayer</dc:creator>
				<category><![CDATA[Uncategorized]]></category>

		<guid isPermaLink="false">http://ryanmlayer.wordpress.com/?p=202</guid>
		<description><![CDATA[Create a file with 1000 lines: for i in {1..1000};do echo $i; done &#62; f export P=0.5 cat f &#124; awk -v p=$P 'BEGIN{srand()} {r = rand(); if (r &#60;= p) print}&#039;<img alt="" border="0" src="http://stats.wordpress.com/b.gif?host=ryanmlayer.wordpress.com&amp;blog=9680382&amp;post=202&amp;subd=ryanmlayer&amp;ref=&amp;feed=1" width="1" height="1" />]]></description>
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			<media:title type="html">ryanlayer</media:title>
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		<item>
		<title>Best Latex Web site EVER</title>
		<link>http://ryanmlayer.wordpress.com/2011/11/10/best-latex-web-site-ever/</link>
		<comments>http://ryanmlayer.wordpress.com/2011/11/10/best-latex-web-site-ever/#comments</comments>
		<pubDate>Thu, 10 Nov 2011 16:59:44 +0000</pubDate>
		<dc:creator>ryanlayer</dc:creator>
				<category><![CDATA[Uncategorized]]></category>

		<guid isPermaLink="false">http://ryanmlayer.wordpress.com/?p=194</guid>
		<description><![CDATA[http://detexify.kirelabs.org/classify.html<img alt="" border="0" src="http://stats.wordpress.com/b.gif?host=ryanmlayer.wordpress.com&amp;blog=9680382&amp;post=194&amp;subd=ryanmlayer&amp;ref=&amp;feed=1" width="1" height="1" />]]></description>
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		<slash:comments>0</slash:comments>
	
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			<media:title type="html">ryanlayer</media:title>
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		<item>
		<title>General Papers</title>
		<link>http://ryanmlayer.wordpress.com/2010/11/22/general-papers/</link>
		<comments>http://ryanmlayer.wordpress.com/2010/11/22/general-papers/#comments</comments>
		<pubDate>Mon, 22 Nov 2010 17:27:56 +0000</pubDate>
		<dc:creator>ryanlayer</dc:creator>
				<category><![CDATA[research]]></category>
		<category><![CDATA[paper]]></category>

		<guid isPermaLink="false">http://ryanmlayer.wordpress.com/?p=197</guid>
		<description><![CDATA[Next-generation gap http://www.nature.com/nmeth/journal/v6/n11s/full/nmeth.f.268.html﻿ &#160;<img alt="" border="0" src="http://stats.wordpress.com/b.gif?host=ryanmlayer.wordpress.com&amp;blog=9680382&amp;post=197&amp;subd=ryanmlayer&amp;ref=&amp;feed=1" width="1" height="1" />]]></description>
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			<media:title type="html">ryanlayer</media:title>
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		<title>Downloading an Entire Web Site with wget</title>
		<link>http://ryanmlayer.wordpress.com/2010/10/08/downloading-an-entire-web-site-with-wget/</link>
		<comments>http://ryanmlayer.wordpress.com/2010/10/08/downloading-an-entire-web-site-with-wget/#comments</comments>
		<pubDate>Fri, 08 Oct 2010 20:31:27 +0000</pubDate>
		<dc:creator>ryanlayer</dc:creator>
				<category><![CDATA[Uncategorized]]></category>

		<guid isPermaLink="false">http://ryanmlayer.wordpress.com/?p=191</guid>
		<description><![CDATA[$ wget \ --recursive \ --no-clobber \ --page-requisites \ --html-extension \ --convert-links \ --restrict-file-names=windows \ --domains website.org \ --no-parent \ www.website.org/tutorials/html/ This command downloads the Web site www.website.org/tutorials/html/. The options are: &#8211;recursive: download the entire Web site. &#8211;domains website.org: don&#8217;t follow links outside website.org. &#8211;no-parent: don&#8217;t follow links outside the directory tutorials/html/. &#8211;page-requisites: get all [...]<img alt="" border="0" src="http://stats.wordpress.com/b.gif?host=ryanmlayer.wordpress.com&amp;blog=9680382&amp;post=191&amp;subd=ryanmlayer&amp;ref=&amp;feed=1" width="1" height="1" />]]></description>
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			<media:title type="html">ryanlayer</media:title>
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		<item>
		<title>My 5c</title>
		<link>http://ryanmlayer.wordpress.com/2010/06/21/my-5c/</link>
		<comments>http://ryanmlayer.wordpress.com/2010/06/21/my-5c/#comments</comments>
		<pubDate>Mon, 21 Jun 2010 20:05:42 +0000</pubDate>
		<dc:creator>ryanlayer</dc:creator>
				<category><![CDATA[Uncategorized]]></category>

		<guid isPermaLink="false">http://ryanmlayer.wordpress.com/?p=187</guid>
		<description><![CDATA[http://my5c.umassmed.edu/welcome/welcome.php<img alt="" border="0" src="http://stats.wordpress.com/b.gif?host=ryanmlayer.wordpress.com&amp;blog=9680382&amp;post=187&amp;subd=ryanmlayer&amp;ref=&amp;feed=1" width="1" height="1" />]]></description>
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		<slash:comments>0</slash:comments>
	
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			<media:title type="html">ryanlayer</media:title>
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		<title>Local Installation and Use of R Packages</title>
		<link>http://ryanmlayer.wordpress.com/2010/06/01/local-installation-and-use-of-r-packages/</link>
		<comments>http://ryanmlayer.wordpress.com/2010/06/01/local-installation-and-use-of-r-packages/#comments</comments>
		<pubDate>Wed, 02 Jun 2010 01:44:36 +0000</pubDate>
		<dc:creator>ryanlayer</dc:creator>
				<category><![CDATA[research]]></category>
		<category><![CDATA[R]]></category>

		<guid isPermaLink="false">http://ryanmlayer.wordpress.com/?p=182</guid>
		<description><![CDATA[http://csg.sph.umich.edu/docs/R/localpackages.html 1. Specifying a local library search location Specify a local library search location. You can use several library trees of add-on packages. The easiest way to tell R to use these via a &#8216;dotfile&#8217; by creating the following file &#8216;$HOME/.Renviron&#8217; (watch the quotes and ~ character): R_LIBS_USER="~/R/library" This specifies a keyword (R_LIBS_USER) which points [...]<img alt="" border="0" src="http://stats.wordpress.com/b.gif?host=ryanmlayer.wordpress.com&amp;blog=9680382&amp;post=182&amp;subd=ryanmlayer&amp;ref=&amp;feed=1" width="1" height="1" />]]></description>
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			<media:title type="html">ryanlayer</media:title>
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		<item>
		<title>Novoalign Alignment Scores</title>
		<link>http://ryanmlayer.wordpress.com/2010/05/31/novoalign-base-qualities-and-alignment-scores/</link>
		<comments>http://ryanmlayer.wordpress.com/2010/05/31/novoalign-base-qualities-and-alignment-scores/#comments</comments>
		<pubDate>Mon, 31 May 2010 18:03:18 +0000</pubDate>
		<dc:creator>ryanlayer</dc:creator>
				<category><![CDATA[research]]></category>
		<category><![CDATA[mapping]]></category>
		<category><![CDATA[novoalign]]></category>

		<guid isPermaLink="false">http://ryanmlayer.wordpress.com/?p=171</guid>
		<description><![CDATA[Base Qualities and Alignment Scores Novoalign aligns reads against a reference genome using qualities and ambiguous nucleotide codes. The initial alignment process finds alignment locations in the indexed sequence that are possible sources of the read sequence. The alignment locations are scored using the Needleman­Wunsch algorithm with affine gap penalties and with position specific scoring [...]<img alt="" border="0" src="http://stats.wordpress.com/b.gif?host=ryanmlayer.wordpress.com&amp;blog=9680382&amp;post=171&amp;subd=ryanmlayer&amp;ref=&amp;feed=1" width="1" height="1" />]]></description>
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			<media:title type="html">ryanlayer</media:title>
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		<title>Mus musculus (laboratory mouse) Chromosome</title>
		<link>http://ryanmlayer.wordpress.com/2010/05/31/mus-musculus-laboratory-mouse-chromosome/</link>
		<comments>http://ryanmlayer.wordpress.com/2010/05/31/mus-musculus-laboratory-mouse-chromosome/#comments</comments>
		<pubDate>Mon, 31 May 2010 17:37:10 +0000</pubDate>
		<dc:creator>ryanlayer</dc:creator>
				<category><![CDATA[research]]></category>
		<category><![CDATA[Uncategorized]]></category>
		<category><![CDATA[chromosome]]></category>

		<guid isPermaLink="false">http://ryanmlayer.wordpress.com/?p=165</guid>
		<description><![CDATA[GenBank id chr length NC_000067 chr1 197195432 NC_000068 chr2 181748087 NC_000069 chr3 159599783 NC_000070 chr4 155630120 NC_000071 chr5 152537259 NC_000072 chr6 149517037 NC_000073 chr7 152524553 NC_000074 chr8 131738871 NC_000075 chr9 124076172 NC_000076 chr10 129993255 NC_000077 chr11 121843856 NC_000078 chr12 121257530 NC_000079 chr13 120284312 NC_000080 chr14 125194864 NC_000081 chr15 103494974 NC_000082 chr16 98319150 NC_000083 chr17 95272651 [...]<img alt="" border="0" src="http://stats.wordpress.com/b.gif?host=ryanmlayer.wordpress.com&amp;blog=9680382&amp;post=165&amp;subd=ryanmlayer&amp;ref=&amp;feed=1" width="1" height="1" />]]></description>
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