MotionCor2 statistics

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MotionCor2 specifications

Information


Unique identifier OMICS_17198
Name MotionCor2
Software type Package/Module
Interface Command line interface
Operating system Unix/Linux, Mac OS, Windows
Computer skills Advanced
Version 1302017
Stability Stable
Maintained Yes

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  • person_outline Shawn Zheng <>

Publication for MotionCor2

MotionCor2 in pipelines

 (30)
2018
PMCID: 5834491
PMID: 29500354
DOI: 10.1038/s41467-018-03271-3

[…] images with 0.25 s exposure time for each frame. a total of 3378 micrographs were collected., the frame images of each micrograph were aligned and averaged for correction of beam-induced drift using motioncor2. the local motion within a micrograph was corrected using 5×5 patches. two average images, with and without dose-weighting, from all except the first frame were generated with 2×binning […]

2018
PMCID: 5834697
PMID: 29440498
DOI: 10.1073/pnas.1717044115

[…] square angstrom, corresponding to a total dose of 74 electrons per square angstrom. stacks were motion-corrected, dose-weighted, and twofold fourier-cropped to a calibrated pixel size of 0.84 å in motioncor2 (). contrast transfer function (ctf) estimates were performed using gctf (), followed by particle picking and extraction of a total of 469,224 particles from 2,479 micrographs in relion […]

2018
PMCID: 5834697
PMID: 29440498
DOI: 10.1073/pnas.1717044115

[…] per square angstrom, corresponding to a total dose of 80 electrons per square angstrom. the software suite focus () was used for online data processing and pruning, applying motion correction with motioncor2, including twofold binning of the recorded micrographs after motion correction to a calibrated pixel size of 1.336 å and ctf estimation with gctf. particles were picked with gautomatch () […]

2018
PMCID: 5842316
PMID: 29499136
DOI: 10.1016/j.molcel.2018.02.008

[…] a total of 4,957 movies were recorded with a defocus range from −0.8 to −3.2 μm in super resolution mode. nominal magnification was 105,000x. motion correction and dose weighting was performed using motioncor2 (). parameters of the contrast transfer function (ctf) of each micrograph were estimated with ctffind4 (). in a first step, ∼20,000 particles were picked with the semi-automated swarm […]

2018
PMCID: 5881032
PMID: 29563192
DOI: 10.1098/rsob.170255

[…] per å2 per second with 25 ms per frame time, retaining a total of 79 frames with an accumulated total dose of approximately 80 electrons per å2., all frames in 2312 movies were aligned using motioncor2 [], with dose weighting. the contrast transfer function (ctf) was estimated by ctffind4 [] from digital micrographs, without dose weighting. in total, 1116 micrographs were selected based […]


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MotionCor2 in publications

 (58)
PMCID: 5928083
PMID: 29712914
DOI: 10.1038/s41467-018-04141-8

[…] per frame (total dose 72 e− å−2), at defocus values between −0.6 and −4.0 μm., a set of 2479 movies was collected. whole-image drift correction and dose weighting of each movie were performed using motioncor2. particles were picked manually using eman boxer or automatically by template matching in gautomatch (by kai zhang, mrc-lmb cambridge, uk), and the micrograph-based ctf was determined […]

PMCID: 5916938
PMID: 29695795
DOI: 10.1038/s41467-018-04044-8

[…] of image defocus of −1.6 ± 0.8 µm (median ± sd) as estimated with gctf. individual nm-curved tubulin complexes were imaged at a higher defocus (−3.0 ± 0.5 µm)., movie frames were aligned with motioncor2 (v01-30-2017) using default parameters, generating both dose-weighted and non-dose weighted sums. ctf parameters per micrographs were estimated with gctf (v0.50) on aligned […]

PMCID: 5933801
PMID: 29684066
DOI: 10.1371/journal.ppat.1007009

[…] in 50 frames of 200 ms exposure. data collection statistics are summarized in ., for data processing, whole frames in each movie were corrected for beam-induced motion and dose compensation using motioncor2 [] and ~1,400 best images were manually selected (we manually discarded micrographs with only carbon field of view or thick ice after motion correction as well as micrographs with defocus […]

PMCID: 5893597
PMID: 29636472
DOI: 10.1038/s41467-018-03785-w

[…] gain using a gain reference recorded within 2 days of the acquired movie, after which they were shifted and summed to generate a single micrograph that was corrected for overall drift using the motioncor2 program. each drift-corrected micrograph was used for the determination of the actual defocus of the micrograph using the ctffind3 program. reference-free 2d classification was carried […]

PMCID: 5864754
PMID: 29567962
DOI: 10.1038/s41467-018-03606-0

[…] with a total electron dose at approximately 60 e-/å2 with an exposure time of 2.25 s. the stacks were first motion corrected with motioncorr and the output stacks were further motion corrected with motioncor2. dose weighting was performed concurrently. gctf was used to estimate the defocus values., a representative diagram of image processing procedures on pkd2l1 is presented in supplementary […]


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MotionCor2 institution(s)
Department of Biochemistry and Biophysics, University of California, San Francisco, San Francisco, CA, USA; Howard Hughes Medical Institute, University of California, San Francisco, San Francisco, CA, USA
MotionCor2 funding source(s)
This work was supported in part by grants from National Institute of Health (R01GM031627, P01GM111126, P50GM082250, R01GM082893 and R01GM098672).

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