Dataset Open Access

Structure Assisted Compressed Sensing Reconstruction of Undersampled AFM Images Dataset

Oxvig, Christian Schou; Arildsen, Thomas; Larsen, Torben

Citation Style Language JSON Export

  "DOI": "10.5281/zenodo.18401", 
  "abstract": "<p>This deposition contains&nbsp;the results from a simulation of reconstructions of undersampled atomic force microscopy (AFM) images. The reconstructions were obtained using weighted iterative thresholding compressed sensing algorithms.</p>\n\n<p>The&nbsp;deposition&nbsp;consists of:</p>\n\n<ol>\n\t<li>An &nbsp;HDF5&nbsp;database containing the results from&nbsp;simulations of reconstructions of undersampled atomic force microscopy images (<em>weighted_it_reconstructions.hdf5</em>).</li>\n\t<li>The Python script which was used to create the database (<em></em>).</li>\n\t<li>MD5 and SHA256 checksums of the database and Python script files (<em>weighted_it_reconstructions.MD5SUMS /&nbsp;weighted_it_reconstructions.SHA256SUMS</em>).</li>\n</ol>\n\n<p>The HDF5 database is licensed under CC BY 4.0 ( . Since the CC BY 4.0 license is not well suited for source code,&nbsp;the Python script is licensed under the BSD 2-Clause license ( .</p>\n\n<p><strong>The files are provided as-is with no warranty as detailed in the above mentioned licenses.</strong></p>\n\n<p>The database is split into four parts:</p>\n\n<ol>\n\t<li>weighted_it_reconstructions.hdf5.tar.xz.part-00</li>\n\t<li>weighted_it_reconstructions.hdf5.tar.xz.part-01</li>\n\t<li>weighted_it_reconstructions.hdf5.tar.xz.part-02</li>\n\t<li>weighted_it_reconstructions.hdf5.tar.xz.part-03</li>\n</ol>\n\n<p>These four parts must be concatenated before the database&nbsp;can be extracted from the&nbsp;tar.xz archive. On Unix-like systems this may be done using:</p>\n\n<p><em>cat weighted_it_reconstructions.hdf5.tar.xz.part-* &gt;&nbsp;weighted_it_reconstructions.hdf5.tar.xz</em></p>\n\n<p>after which&nbsp;the archive may be extracted, e.g.,&nbsp;using:</p>\n\n<p><em>tar&nbsp;xfJ&nbsp;weighted_it_reconstructions.hdf5.tar.xz</em></p>\n\n<p><strong>WARNING: The extracted HDF5 database has a size of 70 GiB.</strong></p>\n\n<p>The simulation results in the database are based on&nbsp;&quot;Atomic Force Microscopy Images of Cell Specimens&quot; by Christian Rankl licensed under CC BY 4.0 ( The original images are available at The&nbsp;original images are provided as-is without warranty of any kind. Both&nbsp;the original images as well as adapted images are part of the dataset.&nbsp;</p>", 
  "author": [
      "family": "Oxvig", 
      "given": "Christian Schou"
      "family": "Arildsen", 
      "given": "Thomas"
      "family": "Larsen", 
      "given": "Torben"
  "id": "18401", 
  "issued": {
    "date-parts": [
  "publisher": "Zenodo", 
  "title": "Structure Assisted Compressed Sensing Reconstruction of Undersampled AFM Images Dataset", 
  "type": "dataset"
All versions This version
Views 0114
Downloads 027
Data volume 0 Bytes28.0 GB
Unique views 097
Unique downloads 012


Cite as