Debian Science Project
Summary
Image analysis
Debian Science image analysis packages

This metapackage will install Debian Science packages related to scientific image acquisition. This might be used in several sciences (as for instance science-dataacquisition, science-viewing and science-typesetting).

Description

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Debian Science Image analysis packages

Official Debian packages with high relevance

Gpiv
GUI-Programm für Particle Image Velocimetry
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Gpiv ist ein GUI-Programm für die Particle Image Velocimetry. Es verwendet GTK/GNOME-Bibliotheken und gibt einen schnellen Überblick über die eingestellten Parameter der Messprozedur und ermöglicht die einfache Anpassung der Parameter, sowohl einfaches als auch mehrfaches Ausführen der Messungen, Visualisieren und Anzeigen der Ergebnisse. Die mit Gpiv durchführbaren Prozesse sind:

Bildbearbeitung, wie sie für PIV typischerweise benötigt wird.

Auswertung der Bilder, die zu Abschätzungen der Teilchenbewegungen führt.

Überprüfen der Daten auf Ausreißer, den »Peak-Locking«-Effekt und der Geschwindigkeitsgradienten im ausgewerteten Bereich.

Datenweiterverarbeitung: Datenmanipulation, räumliches und zeitliches Skalieren, um ein Geschwindigkeitsfeld aus dem PIV-Daten zu erhalten; Berechnung des räumlichen Mittels, der Wirbelstärke und Deformation.

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Gpivtools
command line programs for Particle Image Velocimetry
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interfacecommandline
roleprogram
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A collection of programs for images that are generated during a Particle Image Velocimetry (PIV) experiment. This is a technique to obtain the velocity field of a fluid flow quantitatively and is performed by tracking tracer particles that have been seeded to a fluid. The technique is also applied for observing deformations at surfaces of (solid) bodies. The package contains:

  • an image processing program for typical filtering and manipulation routines that may be convenient for PIV.
  • an image interrogation program resulting into estimators of particle image displacements.
  • validation programs to test on outliers, peak-locking effect and velocity gradients.
  • post-processing programs for data manipulation (flipping, rotation etc), spatial and time scaling, calculation of spatial averages and derivative quantities from the PIV data, like vorticity and strain.
  • miscellaneous programs and scripts to perform image format conversion, batch-processing, pipeline processing (image evaluation, validation and post-processing at once), calculation of time averages from a series of PIV data sets, data-visualization and data-manipulation.

All programs start with gpiv_.

This package contains all files used by gpivtools and gpivtools-mpi, like the man pages.

Gwyddion
Werkzeug zur Visualisierung und Analyse von Daten der Rastersondenmikroskopie
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Gwyddion ist ein modular aufgebautes Programm zur Visualisierung und Analyse von Daten der Rastersondenmikroskopie (Scanning Probe Microscopy - SPM). Es ist vor allem zur Analyse von Höhenfelddaten gedacht, welche durch Mikroskopietechniken wie

  • Rasterkraftmikroskopie (Atomic Force Microscopy - AFM),
  • Magnetkraftmikroskopie (Magnetic Force Microscopy - MFM),
  • Rastertunnelmikroskopie (Scanning Tunneling Microscopy - STM),
  • Optische Rasternahfeldmikroskopie (Near-field Scanning Optical Microscopy - SNOM oder NSOM) oder andere erhalten wurden. Es kann jedoch zur Analyse beliebiger Höhenfeld- und Bilddaten genutzt werden.

Dieses Paket beinhaltet das Hauptprogramm und seine Module. Es umfasst außerdem ein Programm für GNOME (und Xfce), welches Vorschauansichten für alle Gwyddion bekannten Dateitypen erstellt.

Please cite: David Nečas and Petr Klapetek: Gwyddion: an open-source software for SPM data analysis. (eprint) Central European Journal of Physics 10(1):181-188 (2012)
Registry entries: SciCrunch  OMICtools 
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Limereg
Lightweight Image Registration
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Command line application for image registration. Automatically finds an optimal alignment of two input images, that makes both most similar to each other. Outputs the rigid transformation parameters (shift and rotation) and/or the registered (transformed/aligned) image.

Fast algorithm based on analytical derivative based optimization with a multilevel approach and without expensive sparse-matrices.

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Teem-apps
Tools to process and visualize scientific data and images - command line tools
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Teem is a coordinated group of libraries for representing, processing, and visualizing scientific raster data. Teem includes command-line tools that permit the library functions to be quickly applied to files and streams, without having to write any code. The most important and useful libraries in Teem are:

  • Nrrd (and the unu command-line tool on top of it) supports a range of operations for transforming N-dimensional raster data (resample, crop, slice, project, histogram, etc.), as well as the NRRD file format for storing arrays and their meta-information.
  • Gage: fast convolution-based measurements at arbitrary point locations in volume datasets (scalar, vector, tensor, etc.)
  • Mite: a multi-threaded ray-casting volume render with transfer functions based on any quantity Gage can measure
  • Ten: for estimating, processing, and visualizing diffusion tensor fields, including fiber tractography methods.

This package contains some simple command-line tools which provide fast and easy access to the functionality in the various libraries.

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