Colocalization Module for MountainsMap

Transcription

1 Colocalization Module for MountainsMap Combine surface data from different instrument types - carry out correlative studies For 3D optical profilers & AFM, STM, SEM, fluorescence, Raman, IR & other microscopes Colocalization of images from different microscopes Colocalization of microscope images with 3D topography Overlay of microscope and spectrometer images on 3D surface topography Stupendous 3D images at any zoom level and angle Conversion of color or grayscale images into 3D colored pseudo-surfaces Image and surface data correction, horizontal distance & angle measurement Basic metrological filters and studies for surfaces

2 The Colocalization module for MountainsMap provides tools for colocalizing images from different instrument types and for overlaying microscope and spectrometer images on 3D surface topography. It facilitates correlative studies. Broad range of applications. Applications span the physical and life sciences, nanotechnology and biotechnology. For example, they include studies of nanowire morphology, cell morphology, and carbon storage in bacteria that are a potential source of bio-fuel. Colocalization correlates surface data from different instruments The Colocalization module is used to colocalize: Microscope and spectrometer images with surface topography. Two or more microscope and/or spectrometer images. For example SEM, fluorescence or density map images can be colocalized with surface topography obtained by 3D optical and scanning profilometers, SPM (AFM, STM, etc.) and other 3D capable instruments. The flexible set of colocalization tools includes: Automatic colocalization using advanced pattern recognition algorithms. Interactive colocalization including shift, rotate and transparency. Colocalization of STM topography & SEM images Images courtesy of IEMN, Lille, France. Sawtooth faceted sidewalls revealed by colocalization of STM topography with a SEM image of an Si nanowire. Colocalization of AFM topography & SEM images AFM nanostructure topography with highlighted zone. Images courtesy of LNE (French National Metrology Institute). Colocalization of zone topography and SEM image. SEM image of zone. 2

3 Colocalization of simultaneous AFM topography & fluorescence images AFM cell topography. Images courtesy of Agilent Technologies Colocalization of topography and fluorescence image. Fluroescence image Colocalization of SEM SE & BSE images SEM secondary electron (SE) image. Images courtesy of IEMN, Lille, France Composite image obtained by colocalising the SE and BSE images (following conversion and coloring of the BSE image). SEM back-scattered electron (BSE) image 3

4 Colocalization of SEM image and color optical microscope image SEM image Colocalization of cropped SEM image and color optical microscope image. Images of courtesy of Carl Zeiss Optical microscope color image Image overlays on 3D surface topography After colocalization it is easy to overlay SEM, fluorescence, density map and other images on 3D surface topography. Overlays facilitate the study of correlations between features in the images and topographical features. 3D visualization includes fast zooms as well as translation and rotation of all axes, making observation of surface features easy. Superb 3D rendering can be achieved by adjusting the transparency of the overlaid image. SEM image overlay on AFM 3D topography Images courtesy of LNE (French National Metrology Institute). Colocalized AFM topography and SEM image. Overlay of SEM image on AFM topography. 4

5 Simultaneous fluorescence image overlay on AFM 3D topography Images courtesy of Agilent Technologies Colocalized AFM topography & fluorescence image. Overlay of fluorescence image on 3D topography provides insights into cell morphology. IR absorption image overlay on AFM 3D topography AFM topography IR absorption image Overlay of color-coded IR absorption image on AFM 3D topography highlights fat pockets stored in a bacterium. Images courtesy of A. Dazzi & A. Deniset-Besseau, Laboratoire de Chimie Physique, Université de Paris-Sud Additional features and tools Other features include the ability to convert a color or intensity image into 3D colored pseudo-surfaces (with z axis in intensity units). Following colocalization it is possible to overlay another image on a pseudo-3d surface. Additional tools for working with images and surfaces are listed on the back page of this document. 5

6 Colocalization module for MountainsMap Colocalization Colocalize images of the same surface obtained by different instruments or dectectors, for example:- colocalize (1) topography and other images obtained by SPM (AFM, STM, etc.), a 3D optical profiler or a 3D scanning profilometer with (2) images obtained by SEM, fluorescence, IR, Raman and other microscopes and spectrometers - colocalize (a) a SEM secondary electron image with (b) a backscattered electron image. 3D overlays Overlay microscope or spectrometer images on 3D surface topography obtained by any microscope or profiler. Convert any color or intensity image into a 3D colored pseudo-surface (with z axis in intensity units), overlay microscope or spectrometer images on 3D pseudosurfaces. Tools for images and Axis units and scale editor. surfaces Flip. Rotate. Smoothing filters. Measure horizontal distances and angles. Tools for images Select one of ten laser wavelengths for fluorescence images. Tools for surfaces Real time 3D view at any zoom level and angle. Leveling. Basic metrological roughness/waviness filters. Abbott-Firestone (bearing ratio) curve and depth distribution histogram for surfaces. 2D profile extraction and visualization of profile curve (x,z). Compatibility Works with surface data and images loaded by the MountainsMap product to which module is added. Inputs and works with images in standard file formats. Doc Revision: Digital Surf Head Office & R&D Center Digital Surf, 16 rue Lavoisier, Besançon, France Tel contact@digitalsurf.com Digital Surf. All rights reserved. Specifications subject to change without prior notice.