Gwyddion user guide Petr Klapetek, David Necas,ˇ and Christopher Anderson This guide is a work in progress. ii Gwyddion user guide Copyright © 2004–2007, 2009–2021 Petr Klapetek, David Necas,ˇ Christopher Anderson Permission is granted to copy, distribute and/or modify this document under the terms of either • The GNU Free Documentation License, Version 1.2 or any later version published by the Free Software Foundation; with no Invariant Sections, no Front-Cover Texts, and no Back-Cover Texts. A copy of the license is included in the section entitled GNU Free Documentation License. • The GNU General Public License, Version 2 or any later version published by the Free Software Foundation. A copy of the license is included in the section entitled GNU General Public License. Contents iii Contents 1 Introduction 1 1.1 Motivation . .1 1.2 Licensing . .1 2 Installation 2 2.1 Linux/Unix Packages . .2 2.2 MS Windows Packages . .2 Uninstallation . .2 Registry keys . .3 Missing features . .3 Enabling pygwy . .3 3 Getting Started 4 3.1 Main Window . .4 3.2 Data Browser . .5 Controlling the Browser . .6 Images.........................................................6 Graphs.........................................................6 Spectra . .6 Volume ........................................................6 XYZ..........................................................6 3.3 Managing Files . .6 File Loading . .7 File Merging . .8 File Saving . .8 Document History . .8 3.4 Data Window . .9 3.5 Graph Window . .9 3.6 Tools.......................................................... 10 3.7 False Color Mapping . 11 Color Range Tool . 12 Color Gradient Editor . 13 3.8 Presentations and Masks . 13 Presentations . 13 Masks......................................................... 14 3.9 Selections . 14 Selection Manager . 15 3.10 OpenGL 3D Data Display . 15 Basic Controls . 16 Full Controls . 16 Saving Images . 17 OpenGL Material Editor . 17 3.11 Single Point Spectra . 18 Point Spectroscopy Tool . 18 3.12 Volume Data . 18 3.13 XYZ Data . 19 3.14 Metadata . 20 3.15 Image Export . 20 Basic ......................................................... 21 Lateral Scale . 22 iv Gwyddion user guide Value ......................................................... 23 Selection . 24 Presets . 24 3.16 Logging . 24 Disabling logging . 25 3.17 Raw Data File Import . 25 Information . 25 Data Format . 26 Presets . 26 3.18 Specific Data Import . 26 Graphics Formats . 27 Graph Curves . 27 XYZData....................................................... 27 Nano Measuring Machine XYZ Data . 27 Nanonis SXM Data . 27 3.19 Text Data Export . 28 Tabular Data . 28 4 Data Processing and Analysis 30 4.1 Basic Operations . 30 Elementary Geometrical Transformations . 30 Flip...................................................... 30 Rotation by multiples of 90° . 30 Crop ..................................................... 30 Extend . 30 Transformations with Interpolation . 30 Scale ..................................................... 30 Square Samples . 31 Resample . 31 Arbitrary rotation . 31 Binning . 31 Value Transformations . 31 Invert Value . ..