mrcImageCTFObservation

mrcImageCTFObservation is Eos's Command for the simulated mrcImage in modulation when it is taken with an electron microscope. Output file can be used as an input file for the test of CTF Correction.

List of option

Main option

Option	Essential/Optional	Description	Default
-i	Essential	Input: mrcImage	NULL
-o	Optional	Output: mrcImage	NULL
-kV	Optional	Acceleration voltage[kV]	200
-Cs	Optional	Spherical aberration coefficient[mm]	2.1
-df	Optional	Defocus (under is +) [A]	27000
-A	Optional	AmplitudeContrast/PhaseContrast(Amplitude/Phase)	0.0
-Ain	Optional	IlluminationAperture[mrad] (when ctfMode=+32)	0.0
-white	Optional	WhiteNoise(Noise/Signal)	1.0
-SinWin	Optional	RMin[A-1] RMax[A-1]	0.1 1.0
-ctfMode	Optional	ctfMode	0
-Astig	Optional	With Atigmatism: dfMin[A] dfMax[A] ASaxis[degree]	0 0 0
-c	Optional	configFile	NULL
-m	Optional	mode	0

-ctfMode details

Value	Description
0	Phase Only
1	Phase and Amplitude
+32	With Illumination Angle
+256	As Absolute Value

Execution example

Input file image

Min Max Mean SD SE

0 (0, 0, 0) 255 (49, 32, 0) 21.0538 47.6709 0.595886

Example of options only essential

Min Max Mean SD SE

-73.5162 (35, 36, 0) 57.3742 (50, 50, 0) 3.09135e-08 14.5936 0.18242

Option -kV

Case: kV=100

Min Max Mean SD SE

-77.1076 (55, 33, 0) 65.1303 (29, 27, 0) -9.05973e-09 16.5308 0.206634

Option -Cs

Case: Cs=2

Min Max Mean SD SE

-73.5104 (35, 36, 0) 57.3753 (50, 50, 0) -1.75032e-08 14.5937 0.182421

Option -df

Case: df=54000

Min Max Mean SD SE

-73.2264 (52, 35, 0) 61.0619 (26, 25, 0) 5.85006e-08 17.7402 0.221752

Option -Astig

Mode: Astig=(-54000, 54000, 45)

Min Max Mean SD SE

-56.8104 (43, 35, 0) 57.875 (19, 31, 0) -2.03236e-09 15.2833 0.191041

Option -ctfMode

Mode: ctfMode=1

Min Max Mean SD SE

-73.5162 (35, 36, 0) 57.3742 (50, 50, 0) -2.4918e-08 14.5936 0.18242

Mode: ctfMode=1, A=1

Min Max Mean SD SE

-261.062 (39, 38, 0) 47.4055 (28, 25, 0) -21.0538 53.1561 0.664451

Mode: ctfMode=32

Min Max Mean SD SE

-73.5162 (35, 36, 0) 57.3742 (50, 50, 0) 1.68348e-08 14.5936 0.18242

Mode: ctfMode=32, Ain=0.1

Min Max Mean SD SE

-61.8551 (28, 30, 0) 85.9497 (38, 35, 0) 6.42321e-08 16.94 0.21175

Mode: ctfMode=33, A=1, Ain=0.1

Min Max Mean SD SE

-252.869 (39, 38, 0) 41.5229 (27, 26, 0) -21.0538 52.1879 0.652349

Mode: ctfMode=256

Min Max Mean SD SE

-50.3091 (27, 31, 0) 82.1957 (55, 35, 0) 4.93391e-08 14.5936 0.18242

Mode: ctfMode=257, A=1

Min Max Mean SD SE

-30.7261 (26, 25, 0) 270.018 (36, 38, 0) 21.0538 53.1561 0.664451

Mode: ctfMode=288, Ain=0.1

Min Max Mean SD SE

-45.6686 (27, 31, 0) 65.0675 (55, 35, 0) 2.81725e-08 13.2796 0.165995

Mode: ctfMode=289, A=1, Ain=0.1

Min Max Mean SD SE

-27.2028 (26, 26, 0) 254.183 (36, 38, 0) 21.0538 52.1879 0.652349