MRCZ - A file format for cryo-TEM data with fast compression

被引：8
|
作者：
McLeod, Robert A. [1 ]
Righetto, Ricardo Diogo [1 ]
Stewart, Andy [2 ]
Stahlberg, Henning [1 ]
机构：
[1] Univ Basel, Ctr Cellular Imaging & NanoAnalyt C CINA, Basel, Switzerland
[2] Univ Limerick, Dept Phys, Limerick, Ireland
来源：
JOURNAL OF STRUCTURAL BIOLOGY | 2018年 / 201卷 / 03期
基金：
瑞士国家科学基金会;
关键词：
Lossless compression; Data management; File archiving; BEAM-INDUCED MOTION; ELECTRON;
D O I：
10.1016/j.jsb.2017.11.012
中图分类号：
Q5 [生物化学]; Q7 [分子生物学];
学科分类号：
071010 ; 081704 ;
摘要：
The introduction of fast CMOS detectors is moving the field of transmission electron microscopy into the computer science field of big data. Automated data pipelines control the instrument and initial processing steps which imposes more onerous data transfer and archiving requirements. Here we conduct a technical demonstration whereby storage and read/write times are improved 10 x at a dose rate of 1 e(-)/pix/frame for data from a Gatan K2 direct-detection device by combination of integer decimation and lossless compression. The example project is hosted at github.com/em-MRCZ and released under the BSD license.
引用
收藏
页码：252 / 257
页数：6
相关论文
共 50 条
  • [1] Cryo-TEM of soft molecular assemblies
    Danino, Dganit
    CURRENT OPINION IN COLLOID & INTERFACE SCIENCE, 2012, 17 (06) : 316 - 329
  • [2] Study of Biomineralization Processes by Cryo-TEM
    Valentini, F.
    Landi, E.
    Sandri, M.
    Sommerdijk, Nico
    Nudelman, Fabio
    Tampieri, A.
    2009 9TH IEEE CONFERENCE ON NANOTECHNOLOGY (IEEE-NANO), 2009, : 348 - 350
  • [3] Cryo-TEM of supramolecular assemblies in water and toluene
    Schade, B
    Fuhrhop, JH
    Bottcher, C
    ELECTRON MICROSCOPY 1998, VOL 4: BIOLOGICAL SCIENCES, 1998, : 313 - 314
  • [4] Cryo-EXLO Manipulation of FIB Specimens for Cryo-TEM
    Giannuzzi, Lucille A.
    Colletta, Michael
    Yu, Yue
    Kourkoutis, Lena F.
    Iams, Andrew D.
    Beggs, Kyle
    Kassab, Alain J.
    MICROSCOPY AND MICROANALYSIS, 2023, 29 (01) : 145 - 154
  • [5] Cryo-TEM of polyelectrolyte-micelle complexes
    SwansonVethamuthu, M
    Dubin, PL
    Almgren, M
    Li, YJ
    JOURNAL OF COLLOID AND INTERFACE SCIENCE, 1997, 186 (02) : 414 - 419
  • [6] Cryo-TEM Analysis of Collagen Fibrillar Structure
    Quan, Bryan D.
    Sone, Eli D.
    RESEARCH METHODS IN BIOMINERALIZATION SCIENCE, 2013, 532 : 189 - 205
  • [7] Imaging nanostructured fluids using cryo-TEM
    Won, YY
    KOREAN JOURNAL OF CHEMICAL ENGINEERING, 2004, 21 (01) : 296 - 302
  • [8] Cryo-TEM liquid nitrogen splash guard
    Gowen, B.E.
    Burger, L.
    Journal of Microscopy, 1998, 191 (03): : 320 - 322
  • [9] Cryo-TEM liquid nitrogen splash guard
    Gowen, BE
    Burger, L
    JOURNAL OF MICROSCOPY-OXFORD, 1998, 191 : 320 - 322
  • [10] Imaging nanostructured fluids using cryo-TEM
    You-Yeon Won
    Korean Journal of Chemical Engineering, 2004, 21 : 296 - 302
12345