Matlab Imaging Format and Matlab Trace Format: Difference between pages

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Imaging data can be considered 3-way data in which the intensity (absorbance, transmittance, reflectance, etc.) depends on two spatial [x,y] variables and one spectral variable, usually represented by the wavelength, wavenumber, or Raman shift. <br> &nbsp; <br>
Matlab trace format files contain spectra series in a 2D data format where the first dimension is the spectral dimension and the second dimension represents the perturbing variable, i.e. time, pressure, temperature, spatial dimension, etc. <br>


[[File:imaging-file-format-I.jpg|400px|thumb| Matlab structure arrays ''C'' (imaging data) and ''Minfo'' (metadata) present in imaging data files]]
To load Matlab trace files select ''Load Data'' &rarr; ''Matlab trace format'' &rarr; ''x-data'', or ''y-data'' from the ''Load Data'' menu bar.
<br> &nbsp; <br>


To load imaging data in the Matlab data format select ''Load Data'' &rarr; ''Matlab imaging format'' &rarr; ''x-data'' or ''y-data'' to load the x-, or y-data from the ''Load Data'' menu bar. Matlab imaging data files may contain up to four different types of hyperspectral imaging data cubes: original (unprocessed data), pre-processed, derivative and so-called deconvolution data cubes (the latter 3 types of data must be derived from the original spectral data). For a detailed description of the Matlab imaging data format see [http://www.cytospec.com/file.php#FileSaveMatlab].
== Format of a 2D-COS trace file ==


[[File:imaging-file-format-II.jpg|400px|thumb| Fields of the Matlab structure array ''Minfo'' containing important metadata of hyperspectral imaging data files]]
[[File:trace-file-format.jpg|400px|thumb|Variables present in a Matlab trace file]]
 
Matlab trace files contain five different variables to store the spectral data as well as relevant metadata:<br>
* ''spc'' – this variable contains the spectral data, a 2D array of double precision floating point values (float32). Columns indicate individual spectra of absorbance, intensity, transmittance, etc. values. The column length indicates the number of data points per spectrum. The number of columns is equal to the number of observations i.e. the number of spectra.
* ''tos'' - A character vector of variable length which indicates the type of spectra. Examples are ''Transmission'', ''Fluorescence'', ''Raman'', etc.
* ''vst'' - A character vector of variable length indicating the type of the perturbing variable. Examples of vst: ''Temperature'', ''Time'', ''Voltage'', ''Pressure'', or ''Spatial variable''.
* ''war'' - A vector of float32 values with the perturbing variable: ''temperature'', ''time'', ''voltage'', ''pressure'', etc. The length of ''war'' must be equal to size(spc,2).
* ''wav'' - A vector of float32 values, the ''wavenumber'' vector, or more general the vector of y-values (frequencies, wavenumbers, Raman shift. wavelength, or alternative variables). The length of ''wav'' must equal the number of data points per spectrum, i.e. size(wav,1) == size(spc,1). Equidistancy of the 'wav' vector is not a requirement.


== Related links  ==
== Related links  ==


* [[Matlab_Trace_Format|Import data in the trace format (Matlab)]]
* [[Matlab_Imaging_Format|Import data in the CytoSpec imaging format (CytoSpec/Matlab)]]
* [[Excel_Trace_Format|Import data in the MS Excel data format]]
* [[Excel_Trace_Format|Import data in the MS Excel data format]]
* [[Format_of_a_2D-COS_Result_File|Format of a 2D-COS result file (Matlab)]]
* [[Format_of_a_2D-COS_Result_File|Format of a 2D-COS result file (Matlab)]]

Revision as of 17:01, 2 April 2023

Matlab trace format files contain spectra series in a 2D data format where the first dimension is the spectral dimension and the second dimension represents the perturbing variable, i.e. time, pressure, temperature, spatial dimension, etc.

To load Matlab trace files select Load Data → Matlab trace format → x-data, or y-data from the Load Data menu bar.
 

Format of a 2D-COS trace file

Variables present in a Matlab trace file

Matlab trace files contain five different variables to store the spectral data as well as relevant metadata:

  • spc – this variable contains the spectral data, a 2D array of double precision floating point values (float32). Columns indicate individual spectra of absorbance, intensity, transmittance, etc. values. The column length indicates the number of data points per spectrum. The number of columns is equal to the number of observations i.e. the number of spectra.
  • tos - A character vector of variable length which indicates the type of spectra. Examples are Transmission, Fluorescence, Raman, etc.
  • vst - A character vector of variable length indicating the type of the perturbing variable. Examples of vst: Temperature, Time, Voltage, Pressure, or Spatial variable.
  • war - A vector of float32 values with the perturbing variable: temperature, time, voltage, pressure, etc. The length of war must be equal to size(spc,2).
  • wav - A vector of float32 values, the wavenumber vector, or more general the vector of y-values (frequencies, wavenumbers, Raman shift. wavelength, or alternative variables). The length of wav must equal the number of data points per spectrum, i.e. size(wav,1) == size(spc,1). Equidistancy of the 'wav' vector is not a requirement.

Related links

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