pymzML
1. Introduction
1.1. General information
1.1.1. Contact information
1.2. Summary
1.3. Implementation
1.4. Download
1.5. Citation
1.6. Installation
1.7. Introduction
2. Usage
2.1. Basic usage
2.2. Advanced usage
3. Module Run
4. Class Spectrum
5. OBO parser Class
5.1. Accessing specific OBO MS tags
5.2. Minimal accession set
6. Plotting functions
7. Example scripts
7.1. Finding a peak
7.2. Plotting a spectrum
7.3. Abundant precursor
7.4. Compare Spectra
7.5. Query Obo files
7.6. Highest peaks
7.7. extract a specific Ion Chromatogram (EIC, XIC)
7.8. Accessing the original XML Tree of a spectrum
7.9. Write mzML
pymzML
Docs
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Index
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A
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C
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D
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E
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F
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H
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I
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M
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N
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O
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P
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Q
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R
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S
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T
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W
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X
_
__add__() (spec.Spectrum method)
__getitem__() (run.Reader method)
__mul__() (spec.Spectrum method)
__next__() (run.Reader method)
__truediv__() (spec.Spectrum method)
A
accessAllData (module)
add() (plot.Factory method)
C
centroidedPeaks (spec.Spectrum attribute)
compareSpectra (module)
D
deconvolute_peaks() (spec.Spectrum method)
deconvolutedPeaks (spec.Spectrum attribute)
deRef() (spec.Spectrum method)
E
estimatedNoiseLevel() (spec.Spectrum method)
extractIonChromatogram (module)
extremeValues() (spec.Spectrum method)
F
Factory (class in plot)
find_abundant_precursors (module)
H
hasDeconvolutedPeak() (spec.Spectrum method)
hasOverlappingPeak() (spec.Spectrum method)
hasPeak (module)
hasPeak() (spec.Spectrum method)
highestPeaks (module)
highestPeaks() (spec.Spectrum method)
I
i (spec.Spectrum attribute)
info() (plot.Factory method)
M
measuredPrecision (spec.Spectrum attribute)
mz (spec.Spectrum attribute)
N
newPlot() (plot.Factory method)
next() (run.Reader method)
O
obo (module)
P
peaks (spec.Spectrum attribute)
plot (module)
plotAspec (module)
Q
queryOBO (module)
R
Reader (class in run)
reduce() (spec.Spectrum method)
removeNoise() (spec.Spectrum method)
reprofiledPeaks (spec.Spectrum attribute)
,
[1]
run (module)
S
save() (plot.Factory method)
setAdditionalLegend() (plot.Factory method)
similarityTo() (spec.Spectrum method)
spec (module)
Spectrum (class in spec)
Spectrum.__init__() (in module spec)
strip() (spec.Spectrum method)
T
tmassSet (spec.Spectrum attribute)
tmzSet (spec.Spectrum attribute)
transformed_deconvolutedPeaks (spec.Spectrum attribute)
transformedPeaks (spec.Spectrum attribute)
W
writeExample (module)
Writer (class in run)
Writer.__init__() (in module run)
X
xmlTree (spec.Spectrum attribute)