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79 SUMMARY: NESTED | <A HREF="#enum_constant_summary">ENUM CONSTANTS</A> | FIELD | <A HREF="#method_summary">METHOD</A></FONT></TD>
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91 compbio.data.sequence</FONT>
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93 Enum ConservationMethod</H2>
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95 <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true" title="class or interface in java.lang">java.lang.Object</A>
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96 <IMG SRC="../../../resources/inherit.gif" ALT="extended by "><A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Enum.html?is-external=true" title="class or interface in java.lang">java.lang.Enum</A><<A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence">ConservationMethod</A>>
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97 <IMG SRC="../../../resources/inherit.gif" ALT="extended by "><B>compbio.data.sequence.ConservationMethod</B>
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100 <DT><B>All Implemented Interfaces:</B> <DD><A HREF="http://java.sun.com/javase/6/docs/api/java/io/Serializable.html?is-external=true" title="class or interface in java.io">Serializable</A>, <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Comparable.html?is-external=true" title="class or interface in java.lang">Comparable</A><<A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence">ConservationMethod</A>></DD>
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104 <DT><PRE>public enum <B>ConservationMethod</B><DT>extends <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Enum.html?is-external=true" title="class or interface in java.lang">Enum</A><<A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence">ConservationMethod</A>></DL>
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108 Enumeration listing of all the supported methods.
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113 <DT><B>Author:</B></DT>
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114 <DD>Agnieszka Golicz & Peter Troshin</DD>
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119 <!-- =========== ENUM CONSTANT SUMMARY =========== -->
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121 <A NAME="enum_constant_summary"><!-- --></A>
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125 <B>Enum Constant Summary</B></FONT></TH>
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127 <TR BGCOLOR="white" CLASS="TableRowColor">
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128 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ConservationMethod.html#ARMON">ARMON</A></B></CODE>
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131 </TD>
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133 <TR BGCOLOR="white" CLASS="TableRowColor">
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134 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ConservationMethod.html#GERSTEIN">GERSTEIN</A></B></CODE>
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137 </TD>
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139 <TR BGCOLOR="white" CLASS="TableRowColor">
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140 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ConservationMethod.html#JORES">JORES</A></B></CODE>
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143 </TD>
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145 <TR BGCOLOR="white" CLASS="TableRowColor">
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146 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ConservationMethod.html#KABAT">KABAT</A></B></CODE>
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149 </TD>
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151 <TR BGCOLOR="white" CLASS="TableRowColor">
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152 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ConservationMethod.html#KARLIN">KARLIN</A></B></CODE>
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155 </TD>
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157 <TR BGCOLOR="white" CLASS="TableRowColor">
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158 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ConservationMethod.html#LANDGRAF">LANDGRAF</A></B></CODE>
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161 </TD>
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163 <TR BGCOLOR="white" CLASS="TableRowColor">
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164 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ConservationMethod.html#MIRNY">MIRNY</A></B></CODE>
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167 </TD>
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169 <TR BGCOLOR="white" CLASS="TableRowColor">
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170 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ConservationMethod.html#NOT_LANCET">NOT_LANCET</A></B></CODE>
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173 </TD>
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175 <TR BGCOLOR="white" CLASS="TableRowColor">
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176 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ConservationMethod.html#SANDER">SANDER</A></B></CODE>
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179 </TD>
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181 <TR BGCOLOR="white" CLASS="TableRowColor">
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182 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ConservationMethod.html#SCHNEIDER">SCHNEIDER</A></B></CODE>
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185 </TD>
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187 <TR BGCOLOR="white" CLASS="TableRowColor">
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188 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ConservationMethod.html#SHENKIN">SHENKIN</A></B></CODE>
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191 </TD>
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193 <TR BGCOLOR="white" CLASS="TableRowColor">
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194 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ConservationMethod.html#SMERFS">SMERFS</A></B></CODE>
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197 </TD>
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199 <TR BGCOLOR="white" CLASS="TableRowColor">
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200 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ConservationMethod.html#TAYLOR_GAPS">TAYLOR_GAPS</A></B></CODE>
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203 </TD>
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205 <TR BGCOLOR="white" CLASS="TableRowColor">
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206 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ConservationMethod.html#TAYLOR_NO_GAPS">TAYLOR_NO_GAPS</A></B></CODE>
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209 </TD>
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211 <TR BGCOLOR="white" CLASS="TableRowColor">
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212 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ConservationMethod.html#THOMPSON">THOMPSON</A></B></CODE>
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215 </TD>
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217 <TR BGCOLOR="white" CLASS="TableRowColor">
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218 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ConservationMethod.html#VALDAR">VALDAR</A></B></CODE>
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221 </TD>
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223 <TR BGCOLOR="white" CLASS="TableRowColor">
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224 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ConservationMethod.html#WILLIAMSON">WILLIAMSON</A></B></CODE>
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227 </TD>
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229 <TR BGCOLOR="white" CLASS="TableRowColor">
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230 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ConservationMethod.html#ZVELIBIL">ZVELIBIL</A></B></CODE>
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233 </TD>
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237 <!-- ========== METHOD SUMMARY =========== -->
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239 <A NAME="method_summary"><!-- --></A>
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241 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">
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242 <TH ALIGN="left" COLSPAN="2"><FONT SIZE="+2">
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243 <B>Method Summary</B></FONT></TH>
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245 <TR BGCOLOR="white" CLASS="TableRowColor">
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246 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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247 <CODE>static <A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence">ConservationMethod</A></CODE></FONT></TD>
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248 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ConservationMethod.html#getMethod(java.lang.String)">getMethod</A></B>(<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/String.html?is-external=true" title="class or interface in java.lang">String</A> meth)</CODE>
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251 </TD>
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253 <TR BGCOLOR="white" CLASS="TableRowColor">
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254 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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255 <CODE>static <A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence">ConservationMethod</A></CODE></FONT></TD>
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256 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ConservationMethod.html#valueOf(java.lang.String)">valueOf</A></B>(<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/String.html?is-external=true" title="class or interface in java.lang">String</A> name)</CODE>
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259 Returns the enum constant of this type with the specified name.</TD>
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261 <TR BGCOLOR="white" CLASS="TableRowColor">
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262 <TD ALIGN="right" VALIGN="top" WIDTH="1%"><FONT SIZE="-1">
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263 <CODE>static <A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence">ConservationMethod</A>[]</CODE></FONT></TD>
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264 <TD><CODE><B><A HREF="../../../compbio/data/sequence/ConservationMethod.html#values()">values</A></B>()</CODE>
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267 Returns an array containing the constants of this enum type, in
268 the order they are declared.</TD>
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271 <A NAME="methods_inherited_from_class_java.lang.Enum"><!-- --></A>
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272 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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273 <TR BGCOLOR="#EEEEFF" CLASS="TableSubHeadingColor">
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274 <TH ALIGN="left"><B>Methods inherited from class java.lang.<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Enum.html?is-external=true" title="class or interface in java.lang">Enum</A></B></TH>
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276 <TR BGCOLOR="white" CLASS="TableRowColor">
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277 <TD><CODE><A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Enum.html?is-external=true#compareTo(E)" title="class or interface in java.lang">compareTo</A>, <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Enum.html?is-external=true#equals(java.lang.Object)" title="class or interface in java.lang">equals</A>, <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Enum.html?is-external=true#getDeclaringClass()" title="class or interface in java.lang">getDeclaringClass</A>, <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Enum.html?is-external=true#hashCode()" title="class or interface in java.lang">hashCode</A>, <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Enum.html?is-external=true#name()" title="class or interface in java.lang">name</A>, <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Enum.html?is-external=true#ordinal()" title="class or interface in java.lang">ordinal</A>, <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Enum.html?is-external=true#toString()" title="class or interface in java.lang">toString</A>, <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Enum.html?is-external=true#valueOf(java.lang.Class, java.lang.String)" title="class or interface in java.lang">valueOf</A></CODE></TD>
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280 <A NAME="methods_inherited_from_class_java.lang.Object"><!-- --></A>
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283 <TH ALIGN="left"><B>Methods inherited from class java.lang.<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true" title="class or interface in java.lang">Object</A></B></TH>
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285 <TR BGCOLOR="white" CLASS="TableRowColor">
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286 <TD><CODE><A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true#getClass()" title="class or interface in java.lang">getClass</A>, <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true#notify()" title="class or interface in java.lang">notify</A>, <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true#notifyAll()" title="class or interface in java.lang">notifyAll</A>, <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true#wait()" title="class or interface in java.lang">wait</A>, <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true#wait(long)" title="class or interface in java.lang">wait</A>, <A HREF="http://java.sun.com/javase/6/docs/api/java/lang/Object.html?is-external=true#wait(long, int)" title="class or interface in java.lang">wait</A></CODE></TD>
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292 <!-- ============ ENUM CONSTANT DETAIL =========== -->
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294 <A NAME="enum_constant_detail"><!-- --></A>
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295 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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296 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">
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297 <TH ALIGN="left" COLSPAN="1"><FONT SIZE="+2">
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298 <B>Enum Constant Detail</B></FONT></TH>
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302 <A NAME="KABAT"><!-- --></A><H3>
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305 public static final <A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence">ConservationMethod</A> <B>KABAT</B></PRE>
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312 <A NAME="JORES"><!-- --></A><H3>
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315 public static final <A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence">ConservationMethod</A> <B>JORES</B></PRE>
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322 <A NAME="SCHNEIDER"><!-- --></A><H3>
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325 public static final <A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence">ConservationMethod</A> <B>SCHNEIDER</B></PRE>
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332 <A NAME="SHENKIN"><!-- --></A><H3>
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335 public static final <A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence">ConservationMethod</A> <B>SHENKIN</B></PRE>
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342 <A NAME="GERSTEIN"><!-- --></A><H3>
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345 public static final <A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence">ConservationMethod</A> <B>GERSTEIN</B></PRE>
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352 <A NAME="TAYLOR_GAPS"><!-- --></A><H3>
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355 public static final <A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence">ConservationMethod</A> <B>TAYLOR_GAPS</B></PRE>
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362 <A NAME="TAYLOR_NO_GAPS"><!-- --></A><H3>
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363 TAYLOR_NO_GAPS</H3>
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365 public static final <A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence">ConservationMethod</A> <B>TAYLOR_NO_GAPS</B></PRE>
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372 <A NAME="ZVELIBIL"><!-- --></A><H3>
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375 public static final <A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence">ConservationMethod</A> <B>ZVELIBIL</B></PRE>
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382 <A NAME="KARLIN"><!-- --></A><H3>
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385 public static final <A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence">ConservationMethod</A> <B>KARLIN</B></PRE>
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392 <A NAME="ARMON"><!-- --></A><H3>
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395 public static final <A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence">ConservationMethod</A> <B>ARMON</B></PRE>
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402 <A NAME="THOMPSON"><!-- --></A><H3>
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405 public static final <A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence">ConservationMethod</A> <B>THOMPSON</B></PRE>
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412 <A NAME="NOT_LANCET"><!-- --></A><H3>
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415 public static final <A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence">ConservationMethod</A> <B>NOT_LANCET</B></PRE>
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422 <A NAME="MIRNY"><!-- --></A><H3>
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425 public static final <A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence">ConservationMethod</A> <B>MIRNY</B></PRE>
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432 <A NAME="WILLIAMSON"><!-- --></A><H3>
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435 public static final <A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence">ConservationMethod</A> <B>WILLIAMSON</B></PRE>
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442 <A NAME="LANDGRAF"><!-- --></A><H3>
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445 public static final <A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence">ConservationMethod</A> <B>LANDGRAF</B></PRE>
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452 <A NAME="SANDER"><!-- --></A><H3>
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455 public static final <A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence">ConservationMethod</A> <B>SANDER</B></PRE>
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462 <A NAME="VALDAR"><!-- --></A><H3>
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465 public static final <A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence">ConservationMethod</A> <B>VALDAR</B></PRE>
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472 <A NAME="SMERFS"><!-- --></A><H3>
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475 public static final <A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence">ConservationMethod</A> <B>SMERFS</B></PRE>
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481 <!-- ============ METHOD DETAIL ========== -->
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483 <A NAME="method_detail"><!-- --></A>
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484 <TABLE BORDER="1" WIDTH="100%" CELLPADDING="3" CELLSPACING="0" SUMMARY="">
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485 <TR BGCOLOR="#CCCCFF" CLASS="TableHeadingColor">
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486 <TH ALIGN="left" COLSPAN="1"><FONT SIZE="+2">
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487 <B>Method Detail</B></FONT></TH>
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491 <A NAME="values()"><!-- --></A><H3>
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494 public static <A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence">ConservationMethod</A>[] <B>values</B>()</PRE>
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496 <DD>Returns an array containing the constants of this enum type, in
497 the order they are declared. This method may be used to iterate
498 over the constants as follows:
500 for (ConservationMethod c : ConservationMethod.values())
501 System.out.println(c);
506 <DT><B>Returns:</B><DD>an array containing the constants of this enum type, in
507 the order they are declared</DL>
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512 <A NAME="valueOf(java.lang.String)"><!-- --></A><H3>
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515 public static <A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence">ConservationMethod</A> <B>valueOf</B>(<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/String.html?is-external=true" title="class or interface in java.lang">String</A> name)</PRE>
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517 <DD>Returns the enum constant of this type with the specified name.
518 The string must match <I>exactly</I> an identifier used to declare an
519 enum constant in this type. (Extraneous whitespace characters are
523 <DT><B>Parameters:</B><DD><CODE>name</CODE> - the name of the enum constant to be returned.
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524 <DT><B>Returns:</B><DD>the enum constant with the specified name
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526 <DD><CODE><A HREF="http://java.sun.com/javase/6/docs/api/java/lang/IllegalArgumentException.html?is-external=true" title="class or interface in java.lang">IllegalArgumentException</A></CODE> - if this enum type has no constant
527 with the specified name
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528 <DD><CODE><A HREF="http://java.sun.com/javase/6/docs/api/java/lang/NullPointerException.html?is-external=true" title="class or interface in java.lang">NullPointerException</A></CODE> - if the argument is null</DL>
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533 <A NAME="getMethod(java.lang.String)"><!-- --></A><H3>
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536 public static <A HREF="../../../compbio/data/sequence/ConservationMethod.html" title="enum in compbio.data.sequence">ConservationMethod</A> <B>getMethod</B>(<A HREF="http://java.sun.com/javase/6/docs/api/java/lang/String.html?is-external=true" title="class or interface in java.lang">String</A> meth)</PRE>
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