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Add publication reference boxes to single and multi model refinement pages #1732

Closed leginonbot closed 7 months ago

leginonbot commented 7 months ago

Author Name: Amber Herold (Amber Herold) Original Redmine Issue: 1732, https://emg.nysbc.org/redmine/issues/1732 Original Date: 2012-04-16 Original Assignee: Amber Herold

Currently, these do not include references.

Dmitry, can you point me to the correct references for these? I can add them to the code.

These are the generic references. Can I use these or are there more specific ones?

    return referenceBox("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");

    return referenceBox("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");

    return referenceBox("XMIPP: a new generation of an open-source image processing package for electron microscopy", 2004, "Sorzano CO, Marabini R, Velázquez-Muriel J, Bilbao-Castro JR, Scheres SH, Carazo JM, Pascual-Montano A.", "J Struct Biol.", 148, 2, 15477099, false, "10.1016/j.jsb.2004.06.006", "img/xmipp_logo.png");
leginonbot commented 7 months ago

Original Redmine Comment Author Name: Dmitry Lyumkis (@LyumkisLab) Original Date: 2012-04-16T22:27:22Z

for ML3D, I would also add:

Scheres, S. H., H. Gao, et al. (2007). "Disentangling conformational states of macromolecules in 3D-EM through likelihood optimization." Nat Methods 4(1): 27-29.

and:

Scheres, S. H. (2010). "Classification of structural heterogeneity by maximum-likelihood methods." Methods Enzymol 482: 295-320.

leginonbot commented 7 months ago

Original Redmine Comment Author Name: Amber Herold (Amber Herold) Original Date: 2012-04-17T02:43:58Z

I'm not really satisfied with this code...I really want to refactor the whole reference box thing...but I will resist for now.

leginonbot commented 7 months ago

Original Redmine Comment Author Name: Anchi Cheng (@anchi2c) Original Date: 2012-04-17T14:12:47Z

code reviewed.

Any recommendation of sessions that have preparedRecon for testing?