1 <?xml version="1.0" encoding="US-ASCII" standalone="yes"?>
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3 <runnerClassName>compbio.runner.conservation.AACon</runnerClassName>
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5 <name>Quick conservation</name>
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7 Collection of fast conservation methods
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10 <option>-m=KABAT</option>
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11 <option>-m=JORES</option>
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12 <option>-m=SCHNEIDER</option>
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13 <option>-m=SHENKIN</option>
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14 <option>-m=GERSTEIN</option>
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15 <option>-m=TAYLOR_GAPS</option>
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16 <option>-m=TAYLOR_NO_GAPS</option>
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17 <option>-m=ZVELIBIL</option>
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18 <option>-m=ARMON</option>
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19 <option>-m=THOMPSON</option>
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20 <option>-m=NOT_LANCET</option>
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21 <option>-m=MIRNY</option>
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22 <option>-m=WILLIAMSON</option>
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27 <name>Slow conservation</name>
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29 Collection of most expensive (slow) conservation methods
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32 <option>-m=LANDGRAF</option>
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33 <option>-m=KARLIN</option>
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34 <option>-m=SANDER</option>
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35 <option>-m=VALDAR</option>
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36 <option>-m=SMERFS</option>
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41 <name>Complete conservation</name>
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43 Calculate conservation with all supported methods
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46 <option>-m=KABAT</option>
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47 <option>-m=JORES</option>
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48 <option>-m=SCHNEIDER</option>
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49 <option>-m=SHENKIN</option>
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50 <option>-m=GERSTEIN</option>
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51 <option>-m=TAYLOR_GAPS</option>
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52 <option>-m=TAYLOR_NO_GAPS</option>
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53 <option>-m=ZVELIBIL</option>
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54 <option>-m=ARMON</option>
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55 <option>-m=THOMPSON</option>
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56 <option>-m=NOT_LANCET</option>
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57 <option>-m=MIRNY</option>
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58 <option>-m=WILLIAMSON</option>
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59 <option>-m=LANDGRAF</option>
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60 <option>-m=KARLIN</option>
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61 <option>-m=SANDER</option>
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62 <option>-m=VALDAR</option>
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63 <option>-m=SMERFS</option>
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