A tool for fast automatic 3D-stitching of teravoxel-sized microscopy images
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README.md

TeraStitcher

A tool for fast automatic 3D-stitching of teravoxel-sized microscopy images (BMC Bioinformatics 2012, 13:316)

Before using this software, you MUST accept the LICENSE.txt

Documentation, help and other info are available on our Github wiki at http://abria.github.io/TeraStitcher/.

Contributors

  • Alessandro Bria (email: a.bria@unicas.it). Post-doctoral Fellow at University of Cassino (Italy). Main developer.

  • Giulio Iannello (email: g.iannello@unicampus.it). Full Professor at University Campus Bio-Medico of Rome (italy). Supervisor and co-developer.

  • Roberto Valenti (email: r.valenti@unicampus.it). Software Developer at University Campus Bio-Medico of Rome (Italy). Co-developer.

Main features

  • designed for images exceeding the TeraByte size
  • fast and reliable 3D stitching based on a multi-MIP approach
  • typical memory requirement below 4 GB (8 at most)
  • 2D stitching (single slice images) supported
  • regular expression based matching for image file names
  • data subset selection
  • sparse data support
  • i/o plugin-based architecture
  • stitching of multi-channel images
  • support for big tiff files (> 4 GB)
  • HDF5-based formats
  • parallelization on multi-core platform
  • fast alignment computation on NVIDIA GPUs