Appion citations¶

Appion includes software from the following packages:

$title, $year, $authorlist, $journal, $volume=false, $issue=false, $pmid=false, $pmcid=false, $doi=false, $logo=false

EMAN¶

EMAN: semiautomated software for high-resolution single-particle reconstructions.", 1999, "Ludtke SJ, Baldwin PR, Chiu W.", "J Struct Biol.", 128, 1, 10600563, false, false, "img/eman_logo.png");

SPIDER¶

SPIDER and WEB: processing and visualization of images in 3D electron microscopy and related fields.", 1996, "Frank J, Radermacher M, Penczek P, Zhu J, Li Y, Ladjadj M, Leith A.", "J Struct Biol.", 116, 1, 8742743, false, false, "img/spider_logo.png");

IMAGIC¶

"A New Generation of the IMAGIC Image Processing System." (1996) van Heel M., Harauz G., Orlova E. V., Schmidt R. & Schatz M. J Struct Biol. v116(1). PMID: 8742718

Appion¶

"Appion: an integrated, database-driven pipeline to facilitate EM image processing." (2009) Lander GC, Stagg SM, Voss NR, et al.. J Struct Biol. v166(1). PMID: 19263523 Free text: PMC2775544 DOI: 10.1016/j.jsb.2009.01.002

Frealign¶

FREALIGN: high-resolution refinement of single particle structures.", 2007, "Grigorieff, N.", "J Struct Biol.", 157, 1, 16828314, false, "10.1016/j.jsb.2006.05.004", "img/grigorieff_lab.png");

Initial Model¶

A toolbox for ab initio 3-D reconstructions in single-particle electron microscopy.", 2010, "Voss NR, Lyumkis D, Cheng A, <i>et al.</i>", "J Struct Biol.", 169, 3, 20018246, false, false, "img/topbarbackgrnd.jpg");

Dog Picking¶

"DoG Picker and TiltPicker: software tools to facilitate particle selection in single particle electron microscopy." (2009) Voss NR, Yoshioka CK, Radermacher M, Potter CS, Carragher B. J Struct Biol. v166(2). PMID: 19374019 Free text: PMC2768396

ACE¶

"ACE: automated CTF estimation." (2005) Mallick SP, Carragher B, Potter CS, Kriegman DJ. Ultramicroscopy. v104(1). PMID: 15935913

CTFfind¶

"Accurate determination of local defocus and specimen tilt in electron microscopy." (2003) Mindell, JA, Grigorieff N. J Struct Biol. v142(3). PMID: 12781660

XMIPP¶

"Maximum-likelihood multi-reference refinement for electron microscopy images." (2005) Scheres SH, Valle M, Nuñez R, Sorzano CO, Marabini R, Herman GT, Carazo JM. J Mol Biol. v348(1). PMID: 15808859
"Fast maximum-likelihood refinement of electron microscopy images." (2005) Scheres SH, Valle M, Carazo JM. Bioinformatics. v21(Suppl 2). PMID: 16204112