Mercurial > repos > galaxyp > quantwiz_iq

annotate quantwiz_iq.xml @ 0:4f0efe305bff draft default tip

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"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
author galaxyp
date Tue, 21 Jan 2020 15:21:38 -0500
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4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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diff changeset
1 <tool id="quantwiz_iq" name="QuantWiz-IQ" version="2.0">
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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2 <description>Isobaric Quantitation using QuantWiz-IQ</description>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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3 <requirements>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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4 <requirement type="package" version="2.0">quantwiz-iq</requirement>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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5 </requirements>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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6 <command detect_errors="exit_code"><![CDATA[
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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7 cp '$input_file' '$input_file.name'
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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8 &&
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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9 cat '$new_param_file' > '$iq_params'
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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10 #if $input_purity_file.input_purity_file_option == "history":
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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11 && cp '$input_purity_file.purity_type' '$input_purity_file.purity_type.name'
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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12 && echo "Purity_corrections_values=$input_purity_file.purity_type.name" >> '$iq_params'
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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13 #else:
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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14 && PROG_PATH=`which QuantWiz_IQ`
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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15 && cp \${PROG_PATH%/*}/Purity_correction/$input_purity_file.purity_type .
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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16 && echo "Purity_corrections_values=$input_purity_file.purity_type" >> '$iq_params'
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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17 #end if
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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18
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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19 &&
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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20 QuantWiz_IQ '$iq_params'
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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21 && cp '${input_file.name.rsplit('.',1)[0]}_${area_method}_${min_tol}.tsv' '$quant'
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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22 && cp '${input_file.name.rsplit('.',1)[0]}_${area_method}_${min_tol}_noquant.tsv' '$noquant'
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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23 ]]>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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24 </command>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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25 <configfiles>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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26 <configfile name="new_param_file"><![CDATA[#slurp
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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27 Spectra_Folder=.
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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28 #if $input_file.ext == "mgf":
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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29 Input_file_extension=mgf
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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30 #else if $input_file.ext == "mzml":
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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31 Input_file_extension=mzML
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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32 #end if
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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33 Label_type=$input_label.label_type
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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34 Plex=$input_label.num_plex
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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35 min_reporters=$min_reporters
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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36 Spectrum_area=$area_method
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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37 Base_reporter=$input_label.base_reporter
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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38 Normalization=$normalization
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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39 Peak_intensity_threshold=$peak_intensity_threshold
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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40 Tol_unit=$tol_unit
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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41 Tol_min=$min_tol
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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42 Tol_max=$max_tol
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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43 #slurp
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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44 ]]></configfile>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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45 </configfiles>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
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46
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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47 <inputs>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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48 <param type="data" name="input_file" format="mgf,mzml" label="MGF/mzML file"/>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
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49
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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50 <conditional name="input_label">
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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51 <param name="label_type" type="select" label="Isobaric reporter labeling type (MS2 level): iTRAQ or TMT">
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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52 <option value="iTRAQ" selected="true">iTRAQ</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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53 <option value="TMT">TMT</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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54 </param>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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55 <when value="iTRAQ">
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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56 <param name="num_plex" type="select" display="radio" label="You are using iTRAQ: 4Plex or 8Plex">
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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57 <option value="4plex" selected="true">4Plex</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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58 <option value="8plex">8Plex</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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59 </param>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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60 <param name="base_reporter" type="select" label="Denominator reporter tag for ratio calculation (mention only base reporter integer value)">
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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61 <option value="113" selected="true">113</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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62 <option value="114">114</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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63 <option value="115">115</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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64 <option value="116">116</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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65 <option value="117">117</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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66 <option value="118">118</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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67 <option value="119">119</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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68 <option value="121">121</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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69 </param>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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70 </when>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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71 <when value="TMT">
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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72 <param name="num_plex" type="select" display="radio" label="You are using TMT: 2Plex, 6Plex or 10Plex">
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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73 <option value="2plex">2Plex</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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74 <option value="6plex">6Plex</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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75 <option value="10plex" selected="true">10Plex</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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76 </param>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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77 <param name="base_reporter" type="select" label="Denominator reporter tag for ratio calculation (mention only base reporter integer value)">
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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78 <option value="126" selected="true">126</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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79 <option value="127">127</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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80 <option value="128">128</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
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diff changeset
81 <option value="129">129</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
82 <option value="130">130</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
83 <option value="131">131</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
84 </param>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
85 </when>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
86 </conditional>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
87
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
88 <param name="min_reporters" type="integer" value="2" min="0" label="Minimum number of reporter types required to consider a spectrum for quantitation. Default is 2" />
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
89
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
90 <param name="area_method" type="select" label="Spectrum area calculation method">
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
91 <option value="T">Trapezoid</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
92 <option value="S" selected="true">Sum intensity</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
93 <option value="B">Baseline corrected sum intensity</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
94 </param>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
95
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
96 <param name="normalization" type="select" display="radio" label="Perform normalization">
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
97 <option value="yes">Yes</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
98 <option value="no" selected="true">No</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
99 </param>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
100
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
101 <param name="peak_intensity_threshold" type="float" value="0.0" min="0.0" label="Reporter label maximum peak intensity threshold" help="Reporter label maximum peak intensity threshold to consider the tag for quantitation. Default is 0. It depends on signal to noise ratio (S/N)" />
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
102
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
103 <param name="tol_unit" type="select" display="radio" label="MS/MS (MS2) tolerance unit">
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
104 <option value="Da" selected="true">Dalton (Da)</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
105 <option value="ppm">Parts per million (ppm)</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
106 </param>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
107
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
108 <param name="min_tol" type="float" value="0.05" min="0.0" label="Minimum MS/MS (MS2) tolerance range" />
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
109 <param name="max_tol" type="float" value="0.05" min="0.0" label="Maximum MS/MS (MS2) tolerance range" />
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
110
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
111 <conditional name="input_purity_file">
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
112 <param name="input_purity_file_option" type="select" display="radio" label="Use default or from the history">
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
113 <option value="default" selected="true">Use Default</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
114 <option value="history">Use file from the history</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
115 </param>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
116 <when value="default">
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
117 <param name="purity_type" type="select" label="Select default purity correction type">
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
118 <option value="iTRAQ4plex.tsv">iTRAQ 4plex</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
119 <option value="iTRAQ8plex.tsv" selected="true">iTRAQ 8plex</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
120 <option value="TMT6plex.tsv">TMT 6plex</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
121 <option value="TMT10plex.tsv">TMT 10plex</option>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
122 </param>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
123 </when>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
124 <when value="history">
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
125 <param type="data" name="purity_type" format="txt" label="Select purity correction file from the history"/>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
126 </when>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
127 </conditional>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
128 </inputs>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
129
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
130 <outputs>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
131 <data name="quant" format="tabular" label="${tool.name}_Quant.tabular" from_work_dir="${input_file.name.rsplit('.',1)[0]}_${area_method}_${min_tol}.tsv"/>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
132 <data name="noquant" format="tabular" label="${tool.name}_No_Quant.tabular" from_work_dir="${input_file.name.rsplit('.',1)[0]}_${area_method}_${min_tol}_noquant.tsv"/>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
133 <data name="iq_params" format="txt" label="${tool.name}_QuantWiz_IQ_parameters"/>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
134 </outputs>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
135
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
136 <tests>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
137 <test>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
138 <param name="input_file" value="Test_Orbi_iTRAQ_8plex.mgf" ftype="mgf"/>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
139 <param name="label_type" value="iTRAQ"/>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
140 <param name="num_plex" value="8plex"/>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
141 <param name="min_reporters" value="1"/>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
142 <param name="area_method" value="S"/>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
143 <param name="base_reporter" value="113"/>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
144 <param name="normalization" value="no"/>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
145 <param name="peak_intensity_threshold" value="0.0"/>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
146 <param name="tol_unit" value="Da"/>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
147 <param name="min_tol" value="0.05"/>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
148 <param name="max_tol" value="0.05"/>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
149 <param name="input_purity_file_option" value="default"/>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
150 <param name="purity_type" value="iTRAQ8plex.tsv"/>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
151 <output name="quant" file="Test_Orbi_iTRAQ_8plex_S_0.05.tsv">
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
152 <assert_contents>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
153 <has_text text="Retention_time"/>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
154 </assert_contents>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
155 </output>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
156 <output name="noquant" file="Test_Orbi_iTRAQ_8plex_S_0.05_noquant.tsv">
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
157 <assert_contents>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
158 <has_text text="Base_Intensity"/>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
159 </assert_contents>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
160 </output>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
161 </test>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
diff changeset
162 </tests>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
galaxyp
parents:
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163
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
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164 <help><![CDATA[
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
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165
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
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166 **QuantWiz-IQ** for Isobaric Quantitation
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
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167
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
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168 IQ stands for Isobaric Quantitator, a tool for quantitation based on of Isobaric tags (iTRAQ and TMT) that takes
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
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169 MGF as well as the HUPO-PSI standard mzML as input. It supports 4-plex and 8-plex quantitation for iTRAQ;
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
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170 and 2-plex, 6-plex and 10-plex quantitation for TMT.
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
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171
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
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172 **Outputs**:
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
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173
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
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174 Outputs parameters file along with two tabular files. One tabular file contains spectra that shows quantitation,
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
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175 and the other tabular file with spectra that didn't show any qualified quantitation.
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
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176
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
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177 ]]></help>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
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178
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
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179 <citations>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
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180 <citation type="bibtex">
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
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181 @misc{quantwiz_iq,
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
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182 author={Aggarwal, Suruchi and Yadav, Amit Kumar and Kumar, Praveen},
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
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183 year={2020},
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
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184 title={QuantWiz-IQ Galaxy Wrapper}
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
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185 }
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
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186 </citation>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
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187 <citation type="doi">10.1007/978-1-4939-3106-4_18</citation>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
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188 </citations>
4f0efe305bff "planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/quantwiz_iq commit 7e54991bc641a1f70855b686c987f3f331142db1"
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189 </tool>