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PTA - Coggle Diagram
PTA
Work done by Nastya.
Import (job041): cd /mnt/emstorage/facility/stain-proj/eu-ph7-relion/job041
AutoPick (job044): cd /mnt/emstorage/facility/stain-proj/eu-ph7-relion/job044
Use EuAc-pH7 template for autopicking (threshold 1 and inter particle distance 230)
Nastya's pre-Final reported 2D-Class:
job091
Nastya's Final reported Select:
job092
4680 Particles
Nastya's Final reported 2D-Class:
job093
cd /mnt/emstorage/facility/stain-proj/eu-ph7-relion/job093
Output:
Auto-refine: Estimated accuracy angles= 1.01 degrees; offsets= 1.9125 Angstroms
CurrentResolution= 15.5172 Angstroms, which requires orientationSampling of at least 3.52941 degrees for a particle of diameter 500 Angstroms
FINAL
(Nastya)
2D classification
Job: 099
CTF correction: Yes
Ignore CTFs until first peak: No
Number of classes: 15
T: 2
Iterations: 25
Mask diameter (Å): 500
Image alignment: Yes (6-5-1)
2D Helical segments: No
Output
Auto-refine: Estimated accuracy angles= 0.94 degrees; offsets= 1.875 Angstroms
CurrentResolution= 15.5172 Angstroms, which requires orientationSampling of at least 3.52941 degrees for a particle of diameter 500 Angstroms
Select classes
Job: 102
Output
4,671 particles picked.
2D classification
Job: 103
CTF correction: Yes
Ignore CTFs until first peak: No
Number of classes: 15
T: 2
Iterations: 25
Mask diameter (Å): 500
Image alignment: Yes (6-5-1)
2D Helical segments: No
Output
Auto-refine: Estimated accuracy angles= 0.96 degrees; offsets= 1.875 Angstroms
CurrentResolution= 16.0714 Angstroms, which requires orientationSampling of at least 3.67347 degrees for a particle of diameter 500 Angstroms
Select classes
Job: 104
Output
4,666 particles picked.
2D classification
Job: 107
CTF correction: Yes
Ignore CTFs until first peak: No
Number of classes: 15
T: 2
Iterations: 25
Mask diameter (Å): 500
Image alignment: Yes (6-5-1)
2D Helical segments: No
Output
Auto-refine: Estimated accuracy angles= 0.89 degrees; offsets= 1.8375 Angstroms
CurrentResolution= 16.0714 Angstroms, which requires orientationSampling of at least 3.67347 degrees for a particle of diameter 500 Angstroms
Select classes
Job: 110
Output
4,648 particles picked.
1 more item...
Autopicking
Job: 096
Low pass filter: 20
Picking Threshold: 1
Inter-particle distance: 230
Output
13,813 particles picked.
This was created by Nastya..
Autopicking
Job: 196
Low pass filter: 20
Picking Threshold: 1
Inter-particle distance: 230
Are particles white: Yes
References have inverted contrast: Yes
References are CTF corrected: Yes
Output
11,859 particles picked.
Extract particles
Job: 197
Particle box size (pix): 120
Re-scaled particles size(pix): No
Invert contrast: no
Output
11,859 particles
2D classification
Job: 200
CTF correction: No
Ignore CTFs until first peak: No
Number of classes: 100
T: 2
Iterations: 25
Mask diameter (Å): 500
Image alignment: Yes (6-5-1)
2D Helical segments: No
Output
Auto-refine: Estimated accuracy angles= 1.08 degrees; offsets= 2.2125 Angstroms
CurrentResolution= 16.6667 Angstroms, which requires orientationSampling of at least 3.78947 degrees for a particle of diameter 500 Angstroms
Select classes
Job: 203
Output
5,856 particles picked.
2D classification
Job: 204
CTF correction: No
Ignore CTFs until first peak: No
Number of classes: 100
T: 2
Iterations: 25
Mask diameter (Å): 500
Image alignment: Yes (6-5-1)
2D Helical segments: No
Output
Auto-refine: Estimated accuracy angles= 1.05 degrees; offsets= 2.1 Angstroms
CurrentResolution= 17.3077 Angstroms, which requires orientationSampling of at least 3.95604 degrees for a particle of diameter 500 Angstroms
Select classes
Job: 207
Output
4,944 particles picked.
2D classification
Job: 208
CTF correction: No
Ignore CTFs until first peak: No
Number of classes: 100
T: 2
Iterations: 25
Mask diameter (Å): 500
Image alignment: Yes (6-5-1)
2D Helical segments: No
Output
Auto-refine: Estimated accuracy angles= 1 degrees; offsets= 1.9125 Angstroms
CurrentResolution= 16.0714 Angstroms, which requires orientationSampling of at least 3.67347 degrees for a particle of diameter 500 Angstroms
Select classes
Job: 211
Output
4,643 particles picked.
1 more item...
All in EuAc-pH7 folder!!!
