User contributions for Laschp

21 March 2023

• 14:1114:11, 21 March 2023 diff hist +89‎ Mass Spectrometry Databases ‎ →‎MALDI-TOF MS databases
• 14:0914:09, 21 March 2023 diff hist −2‎ m MicrobeMS Wiki:General disclaimer ‎No edit summary current
• 14:0814:08, 21 March 2023 diff hist +1‎ m MicrobeMS Wiki:General disclaimer ‎No edit summary
• 14:0714:07, 21 March 2023 diff hist +1‎ m MicrobeMS Wiki:General disclaimer ‎No edit summary
• 14:0514:05, 21 March 2023 diff hist +53‎ MicrobeMS Wiki:General disclaimer ‎No edit summary
• 14:0414:04, 21 March 2023 diff hist +434‎ Mass Spectrometry Databases ‎ →‎MALDI-TOF MS databases
• 13:5913:59, 21 March 2023 diff hist +549‎ N MicrobeMS Wiki:General disclaimer ‎ Created page with "You are using MicrobeMS at your own risk! There is no responsibility for damages, problems etc. resulting from use of this code. Furthermore, there is also no warranty for bug-free operation, fitness for a particular purpose or the appropriate behavior of the program. Please report software bugs, inconsistencies or suggestions for new functions to lasch at microbe-ms.com. The software is distributed under the CC BY-NC-SA 4.0 license (Creative Commons Attribution-NonComm..."

18 March 2023

• 12:5012:50, 18 March 2023 diff hist +1‎ m Peak Detection ‎ →‎Peak picking - basic concepts
• 12:4912:49, 18 March 2023 diff hist 0‎ N File:View-peak-list.jpg ‎No edit summary
• 12:4912:49, 18 March 2023 diff hist 0‎ N File:Threshold-for-peak-picking.jpg ‎No edit summary
• 12:4812:48, 18 March 2023 diff hist 0‎ N File:Peak-pick.jpg ‎No edit summary
• 12:4712:47, 18 March 2023 diff hist 0‎ m Identification Analysis by Neural Networks ‎No edit summary
• 12:4612:46, 18 March 2023 diff hist 0‎ m Identification Analysis by Neural Networks ‎ →‎Classification
• 12:4612:46, 18 March 2023 diff hist 0‎ m Identification Analysis by Neural Networks ‎No edit summary
• 12:4512:45, 18 March 2023 diff hist 0‎ N File:Ann-html.jpg ‎No edit summary current
• 12:4512:45, 18 March 2023 diff hist 0‎ N File:Ann-text.jpg ‎No edit summary current
• 12:4512:45, 18 March 2023 diff hist 0‎ N File:Ann-settings.jpg ‎No edit summary current
• 12:4412:44, 18 March 2023 diff hist 0‎ N File:Ann-main-figure.jpg ‎No edit summary current
• 12:4412:44, 18 March 2023 diff hist 0‎ N File:Synthon-logo.jpg ‎No edit summary current
• 12:4212:42, 18 March 2023 diff hist 0‎ N File:Wilcox-test-plot.jpg ‎No edit summary current
• 12:4112:41, 18 March 2023 diff hist 0‎ m Microbial Identification based on Mass Spectral Libraries and Interspectral Distances ‎No edit summary Tag: Manual revert
• 12:3312:33, 18 March 2023 diff hist 0‎ m Microbial Identification based on Mass Spectral Libraries and Interspectral Distances ‎No edit summary Tag: Reverted
• 12:3112:31, 18 March 2023 diff hist 0‎ m Microbial Identification based on Mass Spectral Libraries and Interspectral Distances ‎No edit summary
• 12:3012:30, 18 March 2023 diff hist 0‎ m Data Format of Peak List Files ‎No edit summary
• 11:0411:04, 18 March 2023 diff hist 0‎ N File:Peak-frequency-plot.jpg ‎No edit summary current
• 11:0111:01, 18 March 2023 diff hist 0‎ N File:Readlcmsres.jpg ‎No edit summary current
• 10:5910:59, 18 March 2023 diff hist 0‎ N File:Cmpr-main-figure-linux.jpg ‎No edit summary current
• 10:5710:57, 18 March 2023 diff hist 0‎ N File:UHCA.jpg ‎No edit summary
• 10:5510:55, 18 March 2023 diff hist 0‎ N File:T-test-plot.jpg ‎No edit summary current
• 10:5410:54, 18 March 2023 diff hist 0‎ N File:T-test.jpg ‎No edit summary current
• 10:5410:54, 18 March 2023 diff hist 0‎ N File:Gel-view.jpg ‎No edit summary
• 10:5410:54, 18 March 2023 diff hist 0‎ N File:Redes.jpg ‎No edit summary current
• 10:5310:53, 18 March 2023 diff hist 0‎ N File:Autocalibrate.jpg ‎No edit summary current
• 10:5310:53, 18 March 2023 diff hist 0‎ N File:Cut.jpg ‎No edit summary current
• 10:5210:52, 18 March 2023 diff hist 0‎ N File:Load-mzXML.jpg ‎No edit summary current
• 10:5210:52, 18 March 2023 diff hist 0‎ N File:ExportToND.jpg ‎No edit summary current
• 10:5110:51, 18 March 2023 diff hist 0‎ N File:Exportascii.jpg ‎No edit summary current
• 10:4910:49, 18 March 2023 diff hist 0‎ N File:Load-Bruker.jpg ‎No edit summary
• 10:4110:41, 18 March 2023 diff hist 0‎ N File:Batch-dbspectra.jpg ‎No edit summary current
• 10:3810:38, 18 March 2023 diff hist 0‎ N File:Assign-id.jpg ‎No edit summary current
• 10:3510:35, 18 March 2023 diff hist +1,087‎ N Import Mass Spectra in a mzXML Data Format ‎ Created page with "400px|thumb|right|Import of mass spectral data files in the mzXML format This function allows loading of spectral data files stored in a [https://en.wikipedia.org/wiki/Mass_spectrometry_data_format#mzXML mzXML data format] which in principle allows analyzing also data obtained by the [http://www.biomerieux-diagnostics.com/vitek-ms VITEK® MS solution from bioMérieux]. The mzXML import function of MicrobeMS is based on the Matlab routine [htt..."
• 10:3510:35, 18 March 2023 diff hist +3,338‎ N Store spectra (NeuroDeveloper format) ‎ Created page with "right|The dialog box ''export to NeuroDeveloper'' This function allows storing mass spectral data in a format which can be imported by the NeuroDeveloper software. The NeuroDeveloper is a software for teaching and validating artificial neural network models using spectra from various origins (e.g. IR, Raman, or mass spectra). The function ''export to NeuroDeveloper'' is available from the ''File'' menu bar and can be used for converting peak tabl..." current
• 10:3410:34, 18 March 2023 diff hist +1,162‎ N Export spectra to ASCII ‎ Created page with "This function allows storing mass spectral data in a standard two-column ASCII data format. The function ''export ASCII'' is available from the ''File'' menu bar and can be used to export individual original or pre-processed mass spectra (not peaklists!). Select first the spectra to be exported from the listbox denoted with ''MicrobeMS spectra ID`s'' and chose then ''export ASCII'' → ''original spectra'' or ''pre-processed spectra''. This will open a standard file b..."
• 10:3410:34, 18 March 2023 diff hist +173‎ N Store spectra (Bruker format) ‎ Created page with "This function allows storing mass spectral data in the native Bruker spectra data format. Note that this function is still experimental - it should be used only for testing."
• 10:3310:33, 18 March 2023 diff hist +946‎ N Load spectra (Bruker format) ‎ Created page with "520px|thumb|right|Select multiple directories for direct loading of MALDI-TOF mass spectra in a Bruker specific data format This function allows loading of spectral data files stored in a Bruker-specific data format. The function ''load spectra'' is available from the ''File'' menu bar and can be called also by using the shortcut key <Ctrl>+<L>. When pressing the button ''load'' the function is loading all spectra present in subdirectories of th..."
• 10:3210:32, 18 March 2023 diff hist +5,024‎ N Wilcoxon Rank-Sum Test ‎ Created page with "__FORCETOC__ == Introduction == right|input parameters for univariate t-tests| [https://en.wikipedia.org/wiki/Wilcoxon_signed-rank_test| Wilcoxon rank-sum test] (Wikipedia) To be continued == Parameter of the Wilcoxon rank-sum test == * m/z range: boundaries of the m/z region in which the Wilcoxon rank-sum tests are performed * α: significance level of the Wilcoxon rank-sum test * dx (ppm): a parameter defining the width and the number of..."
• 10:3210:32, 18 March 2023 diff hist +5,401‎ N Two-samples t-Tests ‎ Created page with "__FORCETOC__ == Introduction == right| input parameters for univariate t-tests| This function performs two-samples t-tests in each segment of the MALDI-TOF mass spectra using peak tables as inputs. t-tests are useful for biomarker screening in ensembles of mass spectra exhibiting certain degree of similarity. A two-samples t-test in a given m/z segment returns a test decision for the null hypothesis H(0) that the peak intensity data in class I and c..."
• 10:3110:31, 18 March 2023 diff hist +5,335‎ N Peak Frequency Test ‎ Created page with "== Introduction == Peak frequency tests are useful for biomarker screening in ensembles of mass spectra exhibiting certain degree of similarity. These tests require pre-processed spectra with valid peak tables as inputs and are suitable to systematically determine the number of peaks and their relative abundance throughout the spectral m/z intervals. For peak frequency tests it is required to compile a mass spectral data set and to perform pre-processing including peak..."
• 10:3110:31, 18 March 2023 diff hist +2,669‎ N Creating Pseudo-Gel Views ‎ Created page with "When dealing with large spectral databases which sometimes comprise hundreds of individual mass spectra, data inspection and data assessment cannot be done by manual screening of the individual spectra alone. In these instances simulated pseudo-gel views for visual analysis of the data set are popular means. In gel view representations, spectral peak intensities are converted to color, or gray scales and plotted as a function of the m/z values. Gel views are usually gene..."
• 10:3010:30, 18 March 2023 diff hist +4,631‎ N Identification Analysis by Neural Networks ‎ Created page with "__FORCETOC__ == Introduction == The function ''Identification by Neural Networks'' is basically an interface between MicrobeMS and Synthon's NeuroDeveloper™, a software for teaching and validating ANN models with microbial mass spectra. Based on pre-defined neural network models, the interface can be used to classify mass spectra into pre-defined categories (i.e. microbial genera, species, subspecies, etc.). Spectral pre-processing, features selection and ANN cla..."