imzML & mzML Data Pre-Treatment

Quick Test (Subset Processing)

Process only the first N spectra to quickly test parameters.

Preview Spectrum:

Mean spectrum plot

Sum Spectrum plot

Spectrum plot (X,Y)

Spectrum plot (ID)

Preprocessing Pipeline

Method

The algorithm to use for baseline correction.

Parameters

Method

The normalization method to apply.

Method

The alignment algorithm.

Parameters

Method

The peak detection algorithm.

Parameters

Peak Quality Filters

Method

The binning strategy.

Parameters

Feature matrices are exported in highly optimized MatrixMarket Coordinate format (.mtx).
Python: scipy.io.mmread('filtered_data.mtx') | R: Matrix::readMM('filtered_data.mtx')

imzML & mzML Data Processor

Please make sure the ibd and imzML file are located in the same directory and have the same name.
It may take a while to generate the slice / spectrum, please be patient.
To generate the contour or surface plots, you have to select the desired slice first using the interface.

Mean spectrum plot

Sum Spectrum plot

Spectrum plot (X,Y)

Spectrum plot (ID)

Image topography Plot

TrIQ topography Plot

Image surface Plot

TrIQ Surface Plot

Over normal image

Over TrIQ image

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mzML to imzML Converter

Select the .mzML file and the corresponding .txt synchronization file to convert them into an .imzML/.ibd pair.

Spectrum View

Before Preprocessing

After Preprocessing

Image visualizer

TrIQ visualizer

Mean spectrum plot

Sum Spectrum plot

Spectrum plot (X,Y)

Spectrum plot (ID)