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Processing modules
Processing modules
I/O
I/O
Raw data import
Raw data export
Feature list import
Feature list export
Export to other software
Spectral library export
Export scans (feature list)
Export MRM to TSV
Export feature data
Annotation graphics export
File merging
File merging
Raw data files merging
Mobility scan merging
Raw data filtering
Raw data filtering
Scan by scan filtering
Crop filter
Baseline corrections
Align scans
Scan smoothing
Mass detection
Mass detection
Mass detection
Mass detection algorithms
FTMS shoulder peak finder
Mass calibration
LC-MS feature detection
LC-MS feature detection
Chromatogram builder
MSn tree builder
GridMass
Targeted feature detection
Feature detection results
LC-IMS-MS feature detection
LC-IMS-MS feature detection
Ion mobility expander
Ion mobility trace builder
Recursive IMS builder
MS imaging feature detection
MS imaging feature detection
Image builder
MRM feature detection
MRM feature detection
MRM to Scans
Set MRM quantifiers
Smoothing
Resolving
Resolving
Local minimum resolver
Wavelet resolver
Baseline resolver
Noise amplitude resolver
Savitzky-Golay resolver
Spectral deconvolution (GC)
Spectral deconvolution (GC)
GC-EI spectral deconvolution
CCS calibration
MS2 scan pairing
MALDI MS2 scan pairing (SIMSEF)
Isotope filtering
Isotope filtering
13C isotope filter (isotope grouper)
Isotope pattern finder
Isotope peak scanner
Feature grouping
Feature grouping
Correlation grouping
Ion Identity Networking
Spectral / Molecular Networking
Feature list filtering
Feature list filtering
Duplicate feature filter
Feature list rows filter
Feature filter
Peak comparison rows filter
Neutral loss filter
m/z mobility region extraction
Chromatogram blank subtraction
Feature list blank subtraction
Split aligned feature list
Alignment
Alignment
Join aligner
Merge lists
RANSAC aligner
GC-EI aligner
LC Image Aligner
MRM aligner
Gap filling
Gap filling
Peak finder
Same RT and m/z range gap filler
Normalization
Normalization
Retention time calibration
Retention time calibration (scans)
Linear normalizer
Standard compound normalizer
Retention index calculation
Precursor mass search
Precursor mass search
Local database search
Precursor search in local spectral MS/MS library
Spectra search
Spectra search
Spectral library search
NIST MS search
Chemical formula prediction
Lipid annotation
MS2 similarity search
Other parameters
Other parameters
Merge & select fragment scans
Spectra similarity
Other detectors (UV)
Other detectors (UV)
Chromatogram builder (Other spectral data)
Shift, trim, and bin traces (Other detectors)
Baseline correction (Other detectors)
Local minimum resolver (Other detectors)
Correlate MS features with other detectors
Visualization modules
Visualization modules
Visualization overview
MS data visualisation
MS data visualisation
Raw data overview
Additional tools
Ion mobility data visualisation
Image viewer
Image co-localization
Processed data visualization
Processed data visualization
MSMS Visualizer
Interactive Ion Identity Molecular Networks
Feature histograms
4D features plot (Kendrick)
Van Krevelen plot
ECN (Equivalent Carbon Number) models
Lipid annotation summary
Additional tools
Massvoltammogram
Statistics dashboard
Multi detector visualizer
Correlation dashboard
Workflows
Workflows
Untargeted LC-MS workflow
Untargeted LC-IMS-MS workflow
Untargeted GC-MS workflow
Untargeted MS imaging workflow
Batch processing
Library generation
SIMSEF
MRM workflow
Workflow optimization
Tools
Tools
SIMSEF scheduler
Additional resources
Additional resources
Installation
Installation
Install on Windows
Install on Linux
Install on macOS
System requirements
General Terminology
IMS Terminology
LC-MS and LC-IMS-MS data comparison
Spectral similarity measures
Other detector terminology
Additional resources
Additional resources
Table of contents
Performance
Feature table
Contribute
Contribute
Coding
Coding
General structure
mzmine development (in IntelliJ)
Upgrade JDK version
Module development
Modules list
Contribute to documentation
Documentation template
Acknowledgements
Troubleshooting
Changelog
Workshops
Table of contents
Performance
Feature table
Additional figures
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Performance
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Feature table
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