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RELION (for '''RE'''gularised '''LI'''kelihood '''O'''ptimisatio'''N''', pronounce ''rely-on'') is a stand-alone computer program that employs an empirical Bayesian approach to refinement of (multiple) 3D reconstructions or 2D class averages in electron cryo-microscopy (cryo-EM). It is developed in the group of [http://www2.mrc-lmb.cam.ac.uk/groups/scheres/ Sjors Scheres] at the [http://www2.mrc-lmb.cam.ac.uk MRC Laboratory of Molecular Biology]. Briefly, the ill-posed problem of 3D-reconstruction is regularised by incorporating prior knowledge: the fact that macromolecular structures are smooth, i.e. they have limited power in the Fourier domain. In the corresponding Bayesian framework, '''many parameters of a statistical model are learned from the data, which leads to objective and high-quality results without the need for user expertise'''. The underlying theory is given in [http://dx.doi.org/10.1016/j.jmb.2011.11.010 Scheres (2012) JMB]. A more detailed description of its implementation is given in [http://dx.doi.org/10.1016/j.jsb.2012.09.006 Scheres (2012) JSB]. | RELION (for '''RE'''gularised '''LI'''kelihood '''O'''ptimisatio'''N''', pronounce ''rely-on'') is a stand-alone computer program that employs an empirical Bayesian approach to refinement of (multiple) 3D reconstructions or 2D class averages in electron cryo-microscopy (cryo-EM). It is developed in the group of [http://www2.mrc-lmb.cam.ac.uk/groups/scheres/ Sjors Scheres] at the [http://www2.mrc-lmb.cam.ac.uk MRC Laboratory of Molecular Biology]. Briefly, the ill-posed problem of 3D-reconstruction is regularised by incorporating prior knowledge: the fact that macromolecular structures are smooth, i.e. they have limited power in the Fourier domain. In the corresponding Bayesian framework, '''many parameters of a statistical model are learned from the data, which leads to objective and high-quality results without the need for user expertise'''. The underlying theory is given in [http://dx.doi.org/10.1016/j.jmb.2011.11.010 Scheres (2012) JMB]. A more detailed description of its implementation is given in [http://dx.doi.org/10.1016/j.jsb.2012.09.006 Scheres (2012) JSB]. | ||
As the resolution revolution in cryo-EM progresses, many new software solutions are appearing for which the source code is closed and/or which are not free to use for everyone. The development of RELION is supported through long-term funding by the [http://www.mrc.ac.uk UK Medical Research Council], and we are proud to distribute RELION under a GPLv2 license. This means that anyone (including commercial users) can download, use and modify RELION without having to pay us anything. If RELION is useful in your work, please do cite our papers | As the resolution revolution in cryo-EM progresses, many new software solutions are appearing for which the source code is closed and/or which are not free to use for everyone. The development of RELION is supported through long-term funding by the [http://www.mrc.ac.uk UK Medical Research Council], and we are proud to distribute RELION under a GPLv2 license. This means that anyone (including commercial users) can download, use and modify RELION without having to pay us anything. If RELION is useful in your work, please do cite our papers. | ||
For examples of how we have used RELION, and for a complete list of publications about it, please see [http://www2.mrc-lmb.cam.ac.uk/groups/scheres our web site]. | For examples of how we have used RELION, and for a complete list of publications about it, please see [http://www2.mrc-lmb.cam.ac.uk/groups/scheres our web site]. | ||
== | == New documentation == | ||
* '''Please note these pages have now been replaced by documentation on [https://relion.readthedocs.io/ relion.readthedocs.io]].''' | |||
== Legacy pages == | |||
* [[Download & install]] (''also see the list of [[Known_issue]]s and the [[Release notes]]'') | * [[Download & install]] (''also see the list of [[Known_issue]]s and the [[Release notes]]'') | ||
* [[Conventions & File formats]] | * [[Conventions & File formats]] | ||
* [ftp://ftp.mrc-lmb.cam.ac.uk/pub/scheres/ | * [ftp://ftp.mrc-lmb.cam.ac.uk/pub/scheres/relion30_tutorial.pdf Tutorial (v3.0)] and '''new!''' [ftp://ftp.mrc-lmb.cam.ac.uk/pub/scheres/relion31_tutorial.pdf (v3.1)] (''The quickest way to learning RELION'') | ||
* [[Benchmarks & computer hardware]] (''and how to use GPUs'') | * [[Benchmarks & computer hardware]] (''and how to use GPUs'') | ||
* [[FAQs]] (''for useful tricks and in case of trouble'') | * [[FAQs]] (''for useful tricks and in case of trouble'') | ||
** [[Pixel size issues]] | |||
* [[Minimise computational costs]] | |||
* [[Image compression]] | |||
== Getting feedback == | == Getting feedback == | ||
If you have a question, please check the [[FAQs]] and whether the topic has been addressed already on the [http://www.jiscmail.ac.uk/CCPEM CCP-EM mailing list]. If not, use the CCP-EM list to send us your message. Please, do not send us direct e-mails with | If you have a question, please check the [[FAQs]] and whether the topic has been addressed already on the [http://www.jiscmail.ac.uk/CCPEM CCP-EM mailing list]. If not, use the CCP-EM list to send us your message. Please, do not send us direct e-mails with questions about RELION. | ||
Latest revision as of 09:22, 18 July 2023
RELION (for REgularised LIkelihood OptimisatioN, pronounce rely-on) is a stand-alone computer program that employs an empirical Bayesian approach to refinement of (multiple) 3D reconstructions or 2D class averages in electron cryo-microscopy (cryo-EM). It is developed in the group of Sjors Scheres at the MRC Laboratory of Molecular Biology. Briefly, the ill-posed problem of 3D-reconstruction is regularised by incorporating prior knowledge: the fact that macromolecular structures are smooth, i.e. they have limited power in the Fourier domain. In the corresponding Bayesian framework, many parameters of a statistical model are learned from the data, which leads to objective and high-quality results without the need for user expertise. The underlying theory is given in Scheres (2012) JMB. A more detailed description of its implementation is given in Scheres (2012) JSB.
As the resolution revolution in cryo-EM progresses, many new software solutions are appearing for which the source code is closed and/or which are not free to use for everyone. The development of RELION is supported through long-term funding by the UK Medical Research Council, and we are proud to distribute RELION under a GPLv2 license. This means that anyone (including commercial users) can download, use and modify RELION without having to pay us anything. If RELION is useful in your work, please do cite our papers.
For examples of how we have used RELION, and for a complete list of publications about it, please see our web site.
New documentation
- Please note these pages have now been replaced by documentation on relion.readthedocs.io].
Legacy pages
- Download & install (also see the list of Known_issues and the Release notes)
- Conventions & File formats
- Tutorial (v3.0) and new! (v3.1) (The quickest way to learning RELION)
- Benchmarks & computer hardware (and how to use GPUs)
- FAQs (for useful tricks and in case of trouble)
- Minimise computational costs
- Image compression
Getting feedback
If you have a question, please check the FAQs and whether the topic has been addressed already on the CCP-EM mailing list. If not, use the CCP-EM list to send us your message. Please, do not send us direct e-mails with questions about RELION.