Software Tools For Molecular Microscopy/Utilities

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Utilities[edit]

BBHP/Suprim add-ons[edit]

Two plugins for the Burnham-Brandeis Helical Package and/or Suprim, tkfilter for tomogram symmetry filtering and tkstraighten for boxing and straightening helical filaments.
  • Support: Operating systems: Image format support: MRC
  • Cost: Free for academic users
  • Primary Publication to Cite:
    • unpublished


crop[edit]

Program for cutting sections out of 2D and 3D density maps.
  • Support: Operating systems: Linux/Mac Image format support: MRC
  • Cost: Free/Open Source, GPL
  • Primary Publication to Cite:
    • unpublished


diffmap[edit]

Program to calculate difference maps between two density maps.
  • Support: Operating systems: Linux/Mac Image format support: MRC
  • Cost: Free/Open Source, GPL
  • Primary Publication to Cite:
    • unpublished


em2em[edit]

Program to convert images (2D images and 3D volumes) from/to formats typically used in the EM community.
  • Support: Operating systems: Most platforms (Linux/Unix, Mac OS X (intel), MS Windows) Image format support: Most formats (IMAGIC, Spider, CCP4, MRC, CCP4, TIFF, etc.)
  • Cost: Free
  • Primary Publication to Cite:
    • unpublished


Matlab functions for 3dEM file formats[edit]

  • Support: Operating systems: MATLAB-supported systems Image format support: Imagic, MRC and DM3
  • Cost: Free/Open Source, BSD license
  • Written In: MATLAB
  • Primary Publication to Cite:
    • Unpublished


MoniTEM[edit]

A software tool for the Tecnai and Titan platform of TEMs designed to increase system uptime by constant monitoring.
  • Support: Operating systems: Windows Image format support: n/a
  • Cost: Free
  • Primary Publication to Cite:
    • Brunner, M. J., and Resch, G. P. (2009): Automated monitoring to reduce electron microscope downtime. Ultramicroscopy 109, 1389-92.