Mercurial > repos > lecorguille > xcms_xcmsset
comparison macros_xcms.xml @ 31:eb15a3841da4 draft
"planemo upload for repository https://github.com/workflow4metabolomics/xcms commit 42a0bcde81726702194f1b4ecd741d0545648d40"
| author | workflow4metabolomics |
|---|---|
| date | Tue, 28 Apr 2020 09:35:10 -0400 |
| parents | 14b1c52fae62 |
| children | b02d1992a43a |
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| 30:14b1c52fae62 | 31:eb15a3841da4 |
|---|---|
| 96 <param name="intval" type="select" label="Reported intensity values" help="[intval] See the help section below"> | 96 <param name="intval" type="select" label="Reported intensity values" help="[intval] See the help section below"> |
| 97 <option value="into" selected="true">into</option> | 97 <option value="into" selected="true">into</option> |
| 98 <option value="maxo">maxo</option> | 98 <option value="maxo">maxo</option> |
| 99 <option value="intb">intb</option> | 99 <option value="intb">intb</option> |
| 100 </param> | 100 </param> |
| 101 <param name="naTOzero" type="boolean" checked="true" truevalue="TRUE" falsevalue="FALSE" label="Replace the remain NA by 0 in the dataMatrix" help="Rather mandatory for some downstream statistical steps"/> | 101 <param name="naTOzero" type="boolean" checked="true" truevalue="TRUE" falsevalue="FALSE" label="If NA values remain, replace them by 0 in the dataMatrix" help="Mandatory for some of the downstream tools (data processing, statistics) that do not accept NA values"/> |
| 102 </xml> | 102 </xml> |
| 103 | 103 |
| 104 <xml name="input_peaklist_section"> | 104 <xml name="input_peaklist_section"> |
| 105 <section name="peaklist" title="Peak List" expanded="True"> | 105 <section name="peaklist" title="Peak List" expanded="True"> |
| 106 <param name="peaklistBool" type="hidden" label="Get the Peak List" value="True" /> | 106 <param name="peaklistBool" type="hidden" label="Get the Peak List" value="True" /> |
| 191 </param> | 191 </param> |
| 192 <param argument="mzCenterFun" type="select" label="Name of the function to calculate the m/z center of the chromatographic peak" > | 192 <param argument="mzCenterFun" type="select" label="Name of the function to calculate the m/z center of the chromatographic peak" > |
| 193 <option value="wMean">intensity weighted mean of the peak's m/z values</option> | 193 <option value="wMean">intensity weighted mean of the peak's m/z values</option> |
| 194 <option value="mean">mean of the peak's m/z values</option> | 194 <option value="mean">mean of the peak's m/z values</option> |
| 195 <option value="apex">use the m/z value at the peak apex</option> | 195 <option value="apex">use the m/z value at the peak apex</option> |
| 196 <option value="wMeanApex3">ntensity weighted mean of the m/z value at the peak apex and the m/z values left and right of it</option> | 196 <option value="wMeanApex3">intensity weighted mean of the m/z value at the peak apex and the m/z values left and right of it</option> |
| 197 <option value="meanApex3">mean of the m/z value of the peak apex and the m/z values left and right of it</option> | 197 <option value="meanApex3">mean of the m/z value of the peak apex and the m/z values left and right of it</option> |
| 198 </param> | 198 </param> |
| 199 <param argument="integrate" type="select" label="Integration method" > | 199 <param argument="integrate" type="select" label="Integration method" > |
| 200 <option value="1">peak limits are found through descent on the mexican hat filtered data (more robust, but less exact)</option> | 200 <option value="1">peak limits are found through descent on the mexican hat filtered data (more robust, but less exact)</option> |
| 201 <option value="2">peak limits based on real data (more accurate but prone to noise)</option> | 201 <option value="2">peak limits based on real data (more accurate but prone to noise)</option> |