how_to:studio:mzscope
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how_to:studio:mzscope [2015/04/02 17:31] 132.168.72.237 [Display MzDB Files (with mzScope)] |
how_to:studio:mzscope [2015/04/09 09:27] (current) 132.168.72.237 [Peakels] |
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| ===== Display MzDB Files (with mzScope) ===== | ===== Display MzDB Files (with mzScope) ===== | ||
| - | From the MzDB tab, you can define your local directory containing the mzDB files: | + | From the MzDB tab, you can define your local directory containing the mzDB files by clicking on the {{:how_to:studio:folder-open-document.png?|}} button: |
| - | + | ||
| - | {{:how_to:studio:mzdb.png?|}} | + | |
| If you select a file and click on the "View Data" menu in the popup menu, you can display a mzdb file: | If you select a file and click on the "View Data" menu in the popup menu, you can display a mzdb file: | ||
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| {{:how_to:studio:viewdata.png?|}} | {{:how_to:studio:viewdata.png?|}} | ||
| + | ==== TIC or BPI chromatogram ==== | ||
| By default, the TIC chromatogram is displayed. You can click on "BPI" to see the best peak intensity graph. | By default, the TIC chromatogram is displayed. You can click on "BPI" to see the best peak intensity graph. | ||
| - | The "Extract" button will allow you to extract a chromatogram on a specified mass. | + | |
| By clicking in the graph, you can see below the scan at the selected time. | By clicking in the graph, you can see below the scan at the selected time. | ||
| {{:how_to:studio:mzscope.png?|}} | {{:how_to:studio:mzscope.png?|}} | ||
| - | [...] | + | You can choose to display 2 or more chromatograms on the same graph, by selecting 2 files and clicking on "View Data": |
| - | ==== Detect Peakel ==== | + | {{:how_to:studio:mzscopemultifile.png?|}} |
| + | |||
| + | You can extract a chromatogram at a given mass by entering the specified value in the panel above. | ||
| + | ==== Scan ==== | ||
| + | |||
| + | {{:how_to:studio:mzscopescan.png?|}} | ||
| + | |||
| + | You can navigate through the scans | ||
| + | |||
| + | - by increasing or decreasing the scan Ids | ||
| + | |||
| + | - by entering a retention time | ||
| + | |||
| + | - by clicking the keys arrows on the keyboard (Ctrl+Arrows to keep the same ms level) | ||
| + | |||
| + | By double clicking on the scan, the corresponding chromatogram will be displayed above (The Alt key or the check box "XIC overlay" allows you to overlay the chromatograms in the same graph). | ||
| + | |||
| + | {{:how_to:studio:mzscopechromato.png?|}} | ||
| + | ==== Peakels ==== | ||
| + | |||
| + | By selecting a file, you can click on "Detect Peakels" in the popup menu. | ||
| + | |||
| + | {{:how_to:studio:mzscope_detectpeakels_menu.png?|}} | ||
| + | |||
| + | A dialog allows you to choose the parameters of the peakels detection: the tolerance and eventually a range of m/z, or a m/z value: | ||
| + | {{:how_to:studio:detectpeakelsparam.png?|}} | ||
| + | |||
| + | The results are displayed in a table: | ||
| + | {{:how_to:studio:mzscopepeakels.png?|}} | ||
| - | [...] | + | You can double-click (or through the popup menu) on a row to display the peakel in the corresponding raw file: |
| + | {{:how_to:studio:mzscopepeakelview.png?|}} | ||
how_to/studio/mzscope.1427988662.txt.gz · Last modified: 2015/04/02 17:31 by 132.168.72.237
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