Dataset Open Access

Structure Assisted Compressed Sensing Reconstruction of Undersampled AFM Images Dataset

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

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<?xml version='1.0' encoding='utf-8'?>
<oai_dc:dc xmlns:dc="" xmlns:oai_dc="" xmlns:xsi="" xsi:schemaLocation="">
  <dc:creator>Oxvig, Christian Schou</dc:creator>
  <dc:creator>Arildsen, Thomas</dc:creator>
  <dc:creator>Larsen, Torben</dc:creator>
  <dc:description>This deposition contains 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.

The deposition consists of:

	An  HDF5 database containing the results from simulations of reconstructions of undersampled atomic force microscopy images (weighted_it_reconstructions.hdf5).
	The Python script which was used to create the database (
	MD5 and SHA256 checksums of the database and Python script files (weighted_it_reconstructions.MD5SUMS / weighted_it_reconstructions.SHA256SUMS).

The HDF5 database is licensed under CC BY 4.0 ( . Since the CC BY 4.0 license is not well suited for source code, the Python script is licensed under the BSD 2-Clause license ( .

The files are provided as-is with no warranty as detailed in the above mentioned licenses.

The database is split into four parts:


These four parts must be concatenated before the database can be extracted from the tar.xz archive. On Unix-like systems this may be done using:

cat weighted_it_reconstructions.hdf5.tar.xz.part-* &gt; weighted_it_reconstructions.hdf5.tar.xz

after which the archive may be extracted, e.g., using:

tar xfJ weighted_it_reconstructions.hdf5.tar.xz

WARNING: The extracted HDF5 database has a size of 70 GiB.

The simulation results in the database are based on "Atomic Force Microscopy Images of Cell Specimens" by Christian Rankl licensed under CC BY 4.0 ( The original images are available at The original images are provided as-is without warranty of any kind. Both the original images as well as adapted images are part of the dataset. </dc:description>
  <dc:subject>Atomic Force Microscopy</dc:subject>
  <dc:subject>Compressed Sensing</dc:subject>
  <dc:subject>Image Reconstruction</dc:subject>
  <dc:subject>Reproducible Research</dc:subject>
  <dc:title>Structure Assisted Compressed Sensing Reconstruction of Undersampled AFM Images Dataset</dc:title>
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