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1 <?xml version='1.0' encoding='UTF-8'?>
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2 <macros>
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3 <xml name="motif_finding_params">
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4 <param name="memenmotifs" type="integer" min="0" value="3" label="Number of motifs MEME should find for each condition" />
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5 <param name="mememinw" type="integer" min="0" value="6" label="Minimum motif width for MEME" />
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6 <param name="mememaxw" type="integer" min="0" value="16" label="Maximum motif width for MEME" />
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7 </xml>
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8 <xml name="label_cond_params_start">
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9 <param name="input" type="data" format="bam,bed,scidx" label="Run multigps on" help="Supported formats are bam, bed and scidx">
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10 <validator type="unspecified_build" />
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11 </param>
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12 <param name="control" type="data" format="bam,bed,scidx" optional="True" label="Optional file containing reads from a control experiment" help="Must be same forat as the input above" />
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13 <param name="condition_name" type="text" label="Condition name" />
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14 </xml>
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15 <xml name="label_cond_params_end">
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16 <param name="experiment_type" type="select" label="Experiment type for this replicate">
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17 <option value="None" selected="True">Do not set</option>
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18 <option value="chipseq">ChIP-seq</option>
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19 <option value="chipexo">ChIP-exo</option>
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20 </param>
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21 <param name="fixedreadcount" type="select" label="Use fixed per-base read count limit for this replicate?" help="Selecting No uses a global per-base limit that is estimated from a Poisson distribution.">
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22 <option value="None" selected="True">No</option>
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23 <option value="P">Yes</option>
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24 </param>
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25 </xml>
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26 </macros>
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