Daniel Castaño: Created page with "The Fourier Mask that you define on a template during an alignment project describes the Fourier content of the template, ''not'' the one of the data particles. It does not re..."

2017-07-06T08:25:16Z

Created page with "The Fourier Mask that you define on a template during an alignment project describes the Fourier content of the template, ''not'' the one of the data particles. It does not re..."

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The Fourier Mask that you define on a template during an alignment project describes the Fourier content of the template, ''not'' the one of the data particles. It does not reflect directly the missing wedge of the tomogram (which is indicated through the [[table]] on a particle by particle way).

In most cases, this parameter of the project can be generated trivially by passing a volume filled with ones. This indicates that the template passed in the same project (in direct space) is complete in the Fourier space.

You'll only need to pass a non-trivial map when the template has been generated in a way that includes unknown Fourier components. This might happen when you generate a template averaging many membrane proteins extracted from the same membrane. If the normal of the membrane is approximately constant (for instance, the contact area between two cells), the average has missing fourier components. In this case you need to adjust the project parameter ''useCC'' to the value 2 to ask ''Dynamo'' to consider the fourier components of the template marked as zero in the template fourier mask as ''unknown'' when comparing the template and the particle (which will have its own map of known and unknown Fourier coefficients).

Fourier mask on template - Revision history

Daniel Castaño: Created page with "The Fourier Mask that you define on a template during an alignment project describes the Fourier content of the template, ''not'' the one of the data particles. It does not re..."