eotest

• This program performs a 2 way even/odd test to determine the resolution of a reconstruction.

Usage

• eotest [proc=<min proc>,<maxproc>] [hard=<maxpr>] [ctfc=<res in A>] [ctfcw=<SF file>] [median] [sym=<c2,c4,etc>] [mask=<rad>] [pad=<size>] [classkeep=<sigma coef>] [classiter=<iter>] [precen] [imask=<rad>] [xfiles=<a/pix>,<mass in kd>,<ali to>] [amask=<r>,<thr>,<n iter>] [3dit=<n it>] [3dit2=<n it>] [euler2] [fscmp] [refine] [dfilt] [frm2d[=<rad>,<samp>]] [refmaskali] [iter=<n>]

Parameters

• [proc=<min proc>,<maxproc>]	Number of proceesors to use for parallel processing
  [hard=<maxpr>]	Hard limit for make3d
  [ctfc=<res in A>]	Performs CTF correction filtered to the specified resolution
  [ctfcw=<SF file>]	Performs CTF correction with Wiener filtration using a structure factor specified in a file
  [median]	Specify this when CTF correction is NOT being performed
  [sym=<c2,c4,etc>]	Imposes symmetry on the model
  [mask=<rad>]	Applies an outside mask in several stages of refinement
  [pad=<size>]	Pads the model during Fourier reconstruction
  [classkeep=<sigma coef>]	Classkeep value for <a href=classalignall.html>classalignall</a>
  [classiter=<iter>]	Iterations for <a href=classalignall.html>classalignall</a>
  [precen]	Indicates that raw particles have been accurately precentered
  [imask=<rad>]	Applies an inside mask in several stages of refinement
  [xfiles=<a/pix>,<mass in kd>,<ali to>]	Used to generate 3d models that are easy to evaluate
  [amask=<r>,<thr>,<n iter>]	This applies an automask between steps in a reconstruction. see automask2 in proc3d. REQUIRES xfiles to be used.
  [3dit=<n it>]	After constructing a model with Fourier reconstruction, this runs several iterations of real-space model 'cleansing'
  [3dit2=<n it>]	This is real-space refinement with a special maximum entropy-like feature extraction method
  [euler2]	Reassigns Euler angles to class averages using the same step used by refine. ie - 2 will use ang/2 (see <a href=classesrefs.html>classesrefs</a>
  [fscmp]	Use fsc (frc) to compare images instead of normalized variance
  [refine]	Refine each alignment to subpixel accuracy
  [dfilt]	Experimental option which will apply a ~matching filter to the projections during class alignment
  [frm2d[=<rad>,<samp>]]	This will classify using Fast Rotational Matching 2D. rad is the maximum radius of particles; samp is the number of angular sampling points at each radius circle
  [refmaskali]	see refine
  [iter=<n>]	Select the iteration to do eotest. default to last iteration

Description

This program's options parallel [/eman/eman1/progs/refine.html refine]. 'eotest' options are a subset of refine's options. eotest is used to perform a fairly robust resolution determination on a reconstruction. It is run in the same directory as a completed refine command. Note that the refine command MUST terminate normally. Chances are good that if refine is interrupted in the middle of a run, eotest will not produce valid results. eotest splits each cls file into even and odd halves, then proceeds to build an independent model based on each half of the data. By calculating a Fourier shell correlation between the two resulting maps, a fairly robust resolution determination can be made. For a proper determination, the data should be split into 2, 4, 8, etc sets, then the resolution can be determined by interpolating to the entire data set. The estimate made by comparing 2 halves of the data is actually slightly underestimating the final resolution. Due to the rapid nonlinear falloff in signal to noise ratio at resolution limiting spatial frequencies, this underestimation should be relatively slight in most cases.

• EMAN Manual page, generated Mon Jan 8 17:35:59 2007