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Carsten Sachse
Dec 15, 2014, 2:41:37 AM12/15/14
to Selvaraj....@biophys.mpg.de
Dear Selvaraj,
This is how SPRING is thought to work, i.e. you reconstruct to medium resolution and the pixel/voxel size will be chosen such that it can maximally reach 5 - 10 Å (based on approximately 3 x pixel size). As a consequence alignments speed up significantly and convergence is significantly faster.
Find comment in parameter description: “Select if your resolution aim is ‘high’(5 - 10 Angstrom). Data will be binned internally to maximum spatial resolution of 5 Angstrom."
Best wishes,
Carsten
> On Dec 12, 2014, at 13:59, Selvaraj Muniyandi wrote:
>
> Dear Dr. Sachse,
> In the mean time, with a symmetry parameter of 3.28 angstrom and 28 degrees, I got
> a HR 3d reconstruction from segrefine3d and serefineinspect, that
> resembles class average.. My pixel size is 1.14.. When I open in
> chimera, the voxel size is given as 4.56.. In the input, i used 1.14..
> May I know where the binning is happening? Please find the parameter
> file for seg3drefineinspect attached with this mail, hdf file and the
> screen capture of the voxel size.. Thanks.
>
> yours sincerely,
> Selvaraj
This is how SPRING is thought to work, i.e. you reconstruct to medium resolution and the pixel/voxel size will be chosen such that it can maximally reach 5 - 10 Å (based on approximately 3 x pixel size). As a consequence alignments speed up significantly and convergence is significantly faster.
Find comment in parameter description: “Select if your resolution aim is ‘high’(5 - 10 Angstrom). Data will be binned internally to maximum spatial resolution of 5 Angstrom."
Best wishes,
Carsten
> On Dec 12, 2014, at 13:59, Selvaraj Muniyandi wrote:
>
> Dear Dr. Sachse,
> In the mean time, with a symmetry parameter of 3.28 angstrom and 28 degrees, I got
> a HR 3d reconstruction from segrefine3d and serefineinspect, that
> resembles class average.. My pixel size is 1.14.. When I open in
> chimera, the voxel size is given as 4.56.. In the input, i used 1.14..
> May I know where the binning is happening? Please find the parameter
> file for seg3drefineinspect attached with this mail, hdf file and the
> screen capture of the voxel size.. Thanks.
>
> yours sincerely,
> Selvaraj
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