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"chromatographyDuration" ] }, { "page": "extentIdentifiedPrecursorIntensity", "title": "extent of identified MS2 precursor intensity (MS:4000157)", "topics": [ "extentIdentifiedPrecursorIntensity" ] }, { "page": "gaussianSimilarity", "title": "Gaussian Similarity (Peak Shape Quality) per Chromatogram", "topics": [ "gaussianSimilarity" ] }, { "page": "intensityMean", "title": "Intensity statistics (Mean) per chromatogram", "topics": [ "intensityMean" ] }, { "page": "intensityQuartiles", "title": "Intensity Quartiles per chromatogram", "topics": [ "intensityQuartiles" ] }, { "page": "intensityRange", "title": "Intensity Range per chromatogram", "topics": [ "intensityRange" ] }, { "page": "intensitySd", "title": "Intensity statistics (Standard Deviation) per chromatogram", "topics": [ "intensitySd" ] }, { "page": "Lee_2019", "title": "Example data for 'MsQuality': data set of Lee et al. (2019)", "topics": [ "Lee_2019", "msexp_hilic", "msexp_rplc", "sps_hilic", "sps_rplc" ] }, { "page": "Lee_2019_meta_vals", "title": "Example data for 'MsQuality': data set of Lee et al. (2019)", "topics": [ "Lee_2019_meta_vals", "meta", "vals" ] }, { "page": "maxIntensity", "title": "Maximum intensity per chromatogram", "topics": [ "maxIntensity" ] }, { "page": "meanCharge", "title": "mean MS2 precursor charge in all spectra (MS:4000173) or mean MS2 precursor charge in identified spectra (MS:4000174)", "topics": [ "meanCharge" ] }, { "page": "medianCharge", "title": "median MS2 precursor charge in all spectra (MS:4000175) or median MS2 precursor charge in identified spectra (MS:4000176)", "topics": [ "medianCharge" ] }, { "page": "medianPrecursorMz", "title": "MS2 precursor median m/z of identified quantification data points (MS:4000152)", "topics": [ "medianPrecursorMz" ] }, { "page": "medianTicOfRtRange", "title": "median of TIC values in the shortest RT range in which half of the quantification data points are identified (MS:4000159)", "topics": [ "medianTicOfRtRange" ] }, { "page": "medianTicRtIqr", "title": "median of TIC values in the RT range in which the middle half of quantification data points are identified (MS:4000158)", "topics": [ "medianTicRtIqr" ] }, { "page": "msSignal10xChange", "title": "MS1 signal jump (10x) count (MS:4000097) or MS1 signal fall (10x) count (MS:4000098)", "topics": [ "msSignal10xChange" ] }, { "page": "mzAcquisitionRange", "title": "m/z acquisition range (MS:4000069)", "topics": [ "mzAcquisitionRange" ] }, { "page": "numberEmptyScans", "title": "number of empty MS1 scans (MS:4000099), number of empty MS2 scans (MS:4000100), or number of empty MS3 scans (MS:4000101)", "topics": [ "numberEmptyScans" ] }, { "page": "numberSpectra", "title": "number of MS1 spectra (MS:4000059) or number of MS2 spectra (MS:4000060)", "topics": [ "numberSpectra" ] }, { "page": "peakCount", "title": "Peak Count (Number of data points) per chromatogram", "topics": [ "peakCount" ] }, { "page": "peakProminence", "title": "Peak Prominence (Peak-to-Baseline Ratio) per Chromatogram", "topics": [ "peakProminence" ] }, { "page": "peakWidth", "title": "Peak Width per Chromatogram", "topics": [ "peakWidth" ] }, { "page": "plotMetric", "title": "Visualize a quality metric", "topics": [ "plotMetric" ] }, { "page": "plotMetricTibble", "title": "Helper function for plotMetric", "topics": [ "plotMetricTibble" ] }, { "page": "precursorIntensityMean", "title": "MS2 precursor intensity distribution mean (MS:4000117), identified MS2 precursor intensity distribution mean (MS:4000163), or unidentified MS2 precursor intensity distribution mean (MS:4000164)", "topics": [ "precursorIntensityMean" ] }, { "page": "precursorIntensityQuartiles", "title": "MS2 precursor intensity distribution (MS:4000116), identified MS2 precursor intensity distribution (MS:4000161), or unidentified MS2 precursor intensity distribution (MS:4000162)", "topics": [ "precursorIntensityQuartiles" ] }, { "page": "precursorIntensityRange", "title": "MS2 precursor intensity range (MS:4000160)", "topics": [ "precursorIntensityRange" ] }, { "page": "precursorIntensitySd", "title": "MS2 precursor intensity distribution sigma (MS:4000118), identified MS2 precursor intensity distribution sigma (MS:4000165), or unidentified MS2 precursor intensity distribution sigma (MS:4000166)", "topics": [ "precursorIntensitySd" ] }, { "page": "qualityMetrics", "title": "Get a vector of quality metrics than can be applied to 'object'", "topics": [ "qualityMetrics" ] }, { "page": "ratioCharge1over2", "title": "ratio of 1+ over 2+ of all MS2 known precursor charges (MS:4000167) or ratio of 1+ over 2+ of identified MS2 known precursor charges (MS:4000168)", "topics": [ "ratioCharge1over2" ] }, { "page": "ratioCharge3over2", "title": "ratio of 3+ over 2+ of all MS2 known precursor charges (MS:4000169) or ratio of 3+ over 2+ of identified MS2 known precursor charges (MS:4000170)", "topics": [ "ratioCharge3over2" ] }, { "page": "ratioCharge4over2", "title": "ratio of 4+ over 2+ of all MS2 known precursor charges (MS:4000171) or ratio of 4+ over 2+ of identified MS2 known precursor charges (MS:4000172)", "topics": [ "ratioCharge4over2" ] }, { "page": "rtAcquisitionRange", "title": "retention time acquisition range (MS:4000070)", "topics": [ "rtAcquisitionRange" ] }, { "page": "rtIqr", "title": "interquartile RT period for identified quantification data points (MS:4000153)", "topics": [ "rtIqr", "rtIqr,Chromatograms-method", "rtIqr,Spectra-method" ] }, { "page": "rtIqrRate", "title": "rate of the interquartile RT period for identified quantification data points (MS:4000154)", "topics": [ "rtIqrRate" ] }, { "page": "rtOverMsQuarters", "title": "MS1 quarter RT fraction (MS:4000055) or MS2 quarter RT fraction (MS:4000056)", "topics": [ "rtOverMsQuarters" ] }, { "page": "shinyMsQuality", "title": "Shiny application to visualize quality metrics", "topics": [ "shinyMsQuality" ] }, { "page": "signalToNoiseRatio", "title": "Signal-to-Noise Ratio per chromatogram", "topics": [ "signalToNoiseRatio" ] }, { "page": "ticQuantileRtFraction", 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