Angle of astigmatism convention - Revision history

Stefano Scaramuzza at 13:21, 10 April 2019

2019-04-10T13:21:05Z

Stefano Scaramuzza at 14:52, 31 January 2019

2019-01-31T14:52:23Z

Stefano Scaramuzza at 17:02, 30 January 2019

2019-01-30T17:02:02Z

Stefano Scaramuzza at 16:59, 30 January 2019

2019-01-30T16:59:29Z

Stefano Scaramuzza: Created page with "The angle of astigmatism as is it is defined in [https://bio3d.colorado.edu/imod/ IMOD] and [https://github.com/turonova/novaCTF/wiki novaCTF] differes from the convention use..."

2019-01-30T16:59:18Z

Created page with "The angle of astigmatism as is it is defined in [https://bio3d.colorado.edu/imod/ IMOD] and [https://github.com/turonova/novaCTF/wiki novaCTF] differes from the convention use..."

New page

The angle of astigmatism as is it is defined in [https://bio3d.colorado.edu/imod/ IMOD] and [https://github.com/turonova/novaCTF/wiki novaCTF] differes from the convention used in [http://grigoriefflab.janelia.org/ctffind4 CTFFIND4]. This difference should be considered when the defocus was estimated in CTFFIND4 and is then used in IMOD or nocaCTF (novaCTF has also the option to read CTFFIND4 output file). The angle of astigmatism in IMOD is equal to the angle in CTFFIND4 plus 90 degrees:

[[File:astigmatism_conventions.jpg|thumb|center|300px| The angle of astigmatism in IMOD is equal to the angle in CTFFIND4 plus 90 degrees. IMOD measures the angle to the smaller defocus (f1) and CTFFIND4 the angle to the larger defocus (f2).]]

← Older revision		Revision as of 13:21, 10 April 2019
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−	The convention for the angle of astigmatism, as is it is defined in [https://bio3d.colorado.edu/imod/ IMOD] and [https://github.com/turonova/novaCTF/wiki novaCTF], differes from the convention used in [http://grigoriefflab.janelia.org/ctffind4 CTFFIND4]. This difference should be considered when the defocus was estimated in CTFFIND4 and is then used in IMOD/novaCTF. The angle of astigmatism in IMOD/novaCTF is equal to the angle in CTFFIND4 plus 90 degrees (see figure below). It should be noted, that novaCTF has the option to read the format of CTFFIND4 output files.	+	The convention for the angle of astigmatism, as is it is defined in [https://bio3d.colorado.edu/imod/ IMOD] and [https://github.com/turonova/novaCTF/wiki novaCTF], differes from the convention used in [http://grigoriefflab.janelia.org/ctffind4 CTFFIND4]. This difference should be considered when the defocus was estimated in CTFFIND4 and is then used in IMOD/novaCTF. The angle of astigmatism in IMOD/novaCTF is equal to the angle in CTFFIND4 plus 90 degrees (see figure below). It should be noted, that novaCTF has the option to read the format of CTFFIND4 output files. The output from ctffind4 can be converted into the IMOD convention with the function found in [https://github.com/C-CINA/TomographyTools TomographyTools].


	[[File:astigmatism_conventions.jpg\|thumb\|center\|300px\| The angle of astigmatism in IMOD is equal to the angle in CTFFIND4 plus 90 degrees. IMOD measures the angle of the smaller defocus (f1) while CTFFIND4 measures the angle of the larger defocus (f2).]]		[[File:astigmatism_conventions.jpg\|thumb\|center\|300px\| The angle of astigmatism in IMOD is equal to the angle in CTFFIND4 plus 90 degrees. IMOD measures the angle of the smaller defocus (f1) while CTFFIND4 measures the angle of the larger defocus (f2).]]

← Older revision		Revision as of 14:52, 31 January 2019
Line 1:		Line 1:
−	The angle of astigmatism as is it is defined in [https://bio3d.colorado.edu/imod/ IMOD] and [https://github.com/turonova/novaCTF/wiki novaCTF] differes from the convention used in [http://grigoriefflab.janelia.org/ctffind4 CTFFIND4]. This difference should be considered when the defocus was estimated in CTFFIND4 and is then used in IMOD ~~or novaCTF (~~novaCTF ~~has also the option to read CTFFIND4 output file)~~. The angle of astigmatism in IMOD is equal to the angle in CTFFIND4 plus 90 degrees:	+	The convention for the angle of astigmatism, as is it is defined in [https://bio3d.colorado.edu/imod/ IMOD] and [https://github.com/turonova/novaCTF/wiki novaCTF], differes from the convention used in [http://grigoriefflab.janelia.org/ctffind4 CTFFIND4]. This difference should be considered when the defocus was estimated in CTFFIND4 and is then used in IMOD/novaCTF. The angle of astigmatism in IMOD/novaCTF is equal to the angle in CTFFIND4 plus 90 degrees (see figure below). It should be noted, that novaCTF has the option to read the format of CTFFIND4 output files.


−	[[File:astigmatism_conventions.jpg\|thumb\|center\|300px\| The angle of astigmatism in IMOD is equal to the angle in CTFFIND4 plus 90 degrees. IMOD measures the angle to the smaller defocus (f1) ~~and~~ CTFFIND4 the angle to the larger defocus (f2).]]	+	[[File:astigmatism_conventions.jpg\|thumb\|center\|300px\| The angle of astigmatism in IMOD is equal to the angle in CTFFIND4 plus 90 degrees. IMOD measures the angle of the smaller defocus (f1) while CTFFIND4 measures the angle of the larger defocus (f2).]]

← Older revision		Revision as of 17:02, 30 January 2019
Line 1:		Line 1:
−	The angle of astigmatism as is it is defined in [https://bio3d.colorado.edu/imod/ IMOD] and [https://github.com/turonova/novaCTF/wiki novaCTF] differes from the convention used in [http://grigoriefflab.janelia.org/ctffind4 CTFFIND4]. This difference should be considered when the defocus was estimated in CTFFIND4 and is then used in IMOD or ~~nocaCTF~~ (novaCTF has also the option to read CTFFIND4 output file). The angle of astigmatism in IMOD is equal to the angle in CTFFIND4 plus 90 degrees:	+	The angle of astigmatism as is it is defined in [https://bio3d.colorado.edu/imod/ IMOD] and [https://github.com/turonova/novaCTF/wiki novaCTF] differes from the convention used in [http://grigoriefflab.janelia.org/ctffind4 CTFFIND4]. This difference should be considered when the defocus was estimated in CTFFIND4 and is then used in IMOD or novaCTF (novaCTF has also the option to read CTFFIND4 output file). The angle of astigmatism in IMOD is equal to the angle in CTFFIND4 plus 90 degrees:


	[[File:astigmatism_conventions.jpg\|thumb\|center\|300px\| The angle of astigmatism in IMOD is equal to the angle in CTFFIND4 plus 90 degrees. IMOD measures the angle to the smaller defocus (f1) and CTFFIND4 the angle to the larger defocus (f2).]]		[[File:astigmatism_conventions.jpg\|thumb\|center\|300px\| The angle of astigmatism in IMOD is equal to the angle in CTFFIND4 plus 90 degrees. IMOD measures the angle to the smaller defocus (f1) and CTFFIND4 the angle to the larger defocus (f2).]]

← Older revision		Revision as of 16:59, 30 January 2019
Line 1:		Line 1:
	The angle of astigmatism as is it is defined in [https://bio3d.colorado.edu/imod/ IMOD] and [https://github.com/turonova/novaCTF/wiki novaCTF] differes from the convention used in [http://grigoriefflab.janelia.org/ctffind4 CTFFIND4]. This difference should be considered when the defocus was estimated in CTFFIND4 and is then used in IMOD or nocaCTF (novaCTF has also the option to read CTFFIND4 output file). The angle of astigmatism in IMOD is equal to the angle in CTFFIND4 plus 90 degrees:		The angle of astigmatism as is it is defined in [https://bio3d.colorado.edu/imod/ IMOD] and [https://github.com/turonova/novaCTF/wiki novaCTF] differes from the convention used in [http://grigoriefflab.janelia.org/ctffind4 CTFFIND4]. This difference should be considered when the defocus was estimated in CTFFIND4 and is then used in IMOD or nocaCTF (novaCTF has also the option to read CTFFIND4 output file). The angle of astigmatism in IMOD is equal to the angle in CTFFIND4 plus 90 degrees:
		+

	[[File:astigmatism_conventions.jpg\|thumb\|center\|300px\| The angle of astigmatism in IMOD is equal to the angle in CTFFIND4 plus 90 degrees. IMOD measures the angle to the smaller defocus (f1) and CTFFIND4 the angle to the larger defocus (f2).]]		[[File:astigmatism_conventions.jpg\|thumb\|center\|300px\| The angle of astigmatism in IMOD is equal to the angle in CTFFIND4 plus 90 degrees. IMOD measures the angle to the smaller defocus (f1) and CTFFIND4 the angle to the larger defocus (f2).]]