Indicating the missing wedge - Revision history

AlisterBurt: /* Custom missing wedge */

2020-04-03T10:41:36Z

Custom missing wedge

Daniel Castaño: /* Custom missing wedge */

2019-09-03T18:07:07Z

Custom missing wedge

Daniel Castaño at 09:13, 9 March 2018

2018-03-09T09:13:27Z

Daniel Castaño at 09:12, 9 March 2018

2018-03-09T09:12:54Z

Daniel Castaño: Created page with "''Dynamo'' needs to know the missing wedge of the particles. == In the table == The missing wedge of each particle is expressed in columns 13 to 19 of a table (remember that..."

2018-03-09T08:41:18Z

Created page with "''Dynamo'' needs to know the missing wedge of the particles. == In the table == The missing wedge of each particle is expressed in columns 13 to 19 of a table (remember that..."

New page

''Dynamo'' needs to know the missing wedge of the particles.

== In the table ==
The missing wedge of each particle is expressed in columns 13 to 19 of a table (remember that a row represents a single particle).
In this system, column 13 represents the [[Table_column_convention#col 13: ftype (type of fourier sampling) | type of missing wedge]] and the rest of columns are used to express the tilt range in y,x, and z.

== In the catalogue ==
The missing wedge can be passed for each tomogram registered in a catalogue. This way, the tables created during particle cropping will express the missing wedge for each particle in the corresponding columns.

==Custom missing wedge==

@@ Line 9: / Line 9: @@
 ==Custom missing wedge==
-Built-in fourier types represent solid wedges. You can choose to use a customized missing "wedge" for each particle by storing them as separate files in the same  [[Data folder#Fourier Mask on particles| data folder]] where you have your particles (each Fourier mask is represented by a <tt>fmask_XXXX.em</tt> file). In this case, you need to choose <tt>ftype</tt> 5 in the table.
+Built-in fourier types represent solid wedges. You can choose to use a customized missing "wedge" for each particle by storing them as separate files in the same  [[Data folder#Fourier Mask on particles| data folder]] where you have your particles (each Fourier mask is represented by a <tt>pfmask_XXXX.em</tt> file). In this case, you need to choose <tt>ftype</tt> 5 in the table.
 ==Tilt range==

@@ Line 9: / Line 9: @@
 ==Custom missing wedge==
-Built-in fourier types represent solid wedges. You can choose to use a customized missing wedge for each particle by storing them as separate files in the same  [[Data folder#Fourier Mask on particles| data folder]] where you have your particles. In this case, you need to choose <tt>ftype</tt> 5 in the table.
+Built-in fourier types represent solid wedges. You can choose to use a customized missing "wedge" for each particle by storing them as separate files in the same  [[Data folder#Fourier Mask on particles| data folder]] where you have your particles (each Fourier mask is represented by a <tt>fmask_XXXX.em</tt> file). In this case, you need to choose <tt>ftype</tt> 5 in the table.
 ==Tilt range==

@@ Line 34: / Line 34: @@
   <tt>dynamo_wedge_estimate(myParticle,'show',1);</tt>
-[[File:MissingWedgeVisualizationUnclear.png|thumb|upright|400px| Visualization of an experimental missing wedge]]
+[[File:MissingWedgeVisualizationUnclear.png|thumb|center|400px| Visualization of an experimental missing wedge]]
 If the visualization does not reveal the structure of the missing wedge because high frequencies are downplayed, you can play with the visualization factors.
@@ Line 40: / Line 40: @@
   <tt>dynamo_wedge_estimate(myParticle,'show',1,'factor',0.1);</tt>
-[[File:MissingWedgeEstimationFactor0point1.png|thumb|upright|400px| Estimation of the missing wedge with enhanced visualization]].
+[[File:MissingWedgeEstimationFactor0point1.png|thumb|center|400px| Estimation of the missing wedge with enhanced visualization]].
 In this case, this data particle should be assigned a couple [-60,45] in columns 14 and 15 of the table.

@@ Line 3: / Line 3: @@
 == In the table ==
 The missing wedge of each particle is expressed in columns 13 to 19 of a table (remember that a row represents a single particle).
-In this system, column 13  represents the [[Table_column_convention#col 13: ftype (type of fourier sampling) | type of missing wedge]] and the rest of columns are used to express the tilt range in y,x, and z.
+In this system, column 13  represents the [[Table_column_convention#col 13: ftype (type of fourier sampling) | type of missing wedge]] and the rest of columns are used to express the tilt range in y, x, and z. Only the relevants columns for each case are taken into account.
 == In the catalogue ==
@@ Line 9: / Line 9: @@
 ==Custom missing wedge==