[3dem] [ccpem] K-means clustering algorithm
Marin van Heel
marin.vanheel at googlemail.com
Fri Aug 18 05:48:37 PDT 2017
Dear Leonardo,
You may want to go to the original literature to better understand the
basic principles of classification. In our recent review
(http://www.scirp.org/journal/PaperInformation.aspx?PaperID=70260) you
will also find the links to our original classification papers from the
1980s. Things got rather messed up in terms of nomenclature in the
literature recently because people now often refer to "2D
classification" while actually referring to a mixture of reference-based
alignments and automatic classification. The same happens in"3D
classification". I have also discussed some of these issues in my Wiley
2017 award lecture which you can find on line. These issue are discussed
in more depth in a methodological paper that will appear shortly in
IUCrJ (www.iucrj.org).
Cheers,
Marin
================================================
On 18/08/2017 08:05, Leonardo Feletto wrote:recently
> Dear all,
>
> I am a newbie in using image analysis softwares and in studying image analysis in general. I was reading this review
>
> https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4409659/
>
> to better understand the k-means clustering algorithm, which underlies many processes in image analysis. I had some troubles to properly figure out something in this figure:
>
> https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4409659/figure/F3/
>
> I cannot understand the meaning of CCCs and ccfs abbreviations used to describe the processes taking place while k-means clustering algorithm is running. In addition, I was interested to understand whether 3D classification in RELION relies on a variation of this process too, integrating bayesian approach to correctly split the particles dataset in the different models eventually produced.
>
> I hope someone could answer my questions,
>
> Best regards
>
>
> Leonardo
--
==============================================================
Prof Dr Ir Marin van Heel
Laboratório Nacional de Nanotecnologia - LNNano
CNPEM/LNNano, Campinas, Brazil
tel: +55-19-3518-2316
mobile +55-19-981809332
(041-19-981809332 TIM)
Skype: Marin.van.Heel
email: marin.vanheel(A_T)gmail.com
marin.vanheel(A_T)lnnano.cnpem.br
and: mvh.office(A_T)gmail.com
--------------------------------------------------
Emeritus Professor of Cryo-EM Data Processing
Leiden University
Mobile NL: +31(0)652736618
Emeritus Professor of Structural Biology
Imperial College London
Faculty of Natural Sciences
email: m.vanheel(A_T)imperial.ac.uk
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