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1 <tool id="tablemerger" name="SNP table merger">
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2
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3 <description>merges any number of SNP tables into one</description>
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4
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5 <command interpreter="python">tablemerger.py $output
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6 #for $f in $inputs:
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7 $f.in
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8 #end for
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9 </command>
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10
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11 <inputs>
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12
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13 <repeat name="inputs" title="Input files">
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14
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15 <param name="in" type="data" format="tabular" label="Input SNP table" />
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16
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17 </repeat>
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18
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19 </inputs>
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20
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21 <outputs>
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22
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23 <data name="output" format="tabular" label="${tool.name} on various SNP tables" />
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24
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25 </outputs>
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26
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27 <help>
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28
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29
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30
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31 **What it does**
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32
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33
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34
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35 This tool takes any number of tab-delimited SNP tables and merges them together.It puts SNPs at the same position on the same line and ignores bases that are the same in two strains.
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36
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37
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38 **Example input 1**:
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39
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40
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41
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42 ======== === =======
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43 Position Ref Strain1
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44
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45 123 A G
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46
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47 125 C T
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48
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49 ======== === =======
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50
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51
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52
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53 **Example input 2**:
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54
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55
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56
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57 ======== === =======
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58 Position Ref Strain2
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59
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60 123 A T
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61
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62 124 G C
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63
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64 125 C T
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65
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66 ======== === ========
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67
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68
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69
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70
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71 **Example output**:
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72
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73
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74
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75 ======== === ======= =======
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76
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77 Position Ref Strain1 Strain2
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78
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79 123 A G T
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80
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81 124 G C
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82
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83 125 C T T
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84
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85 ======== === ======= =======
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86
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87 </help>
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88
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89 </tool>
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