Difference between revisions of "Multireference alignment"
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[[Category:Multireference Alignment]] | [[Category:Multireference Alignment]] | ||
| − | In a multireference alignment [MRA] project, each particle will be aligned against R different templates. | + | |
| + | In a multireference alignment [MRA] project, each particle will be aligned against R different templates. | ||
| + | Multireference projects are mainly used to incarnate the [[Multireference analysis]] approach for simultaneous alignment and classification. | ||
== The process of multireference alignment == | == The process of multireference alignment == | ||
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If you have R references and N particles, each particle will be aligned against all the R references. The particle will produce R different cross-correlation scores and R different sets of alignment pararameters. Thus, ''Dynamo''will produce R different [[Refined table|refinement tables]], each for one ''reference channel''. | If you have R references and N particles, each particle will be aligned against all the R references. The particle will produce R different cross-correlation scores and R different sets of alignment pararameters. Thus, ''Dynamo''will produce R different [[Refined table|refinement tables]], each for one ''reference channel''. | ||
| − | Each particle will have a single reference yielding the maximal cc score. | + | Each particle will have a single reference yielding the maximal cc score. |
| Line 17: | Line 19: | ||
== Input format == | == Input format == | ||
| − | Introducing project elements (template, tables) for MRA projects is slightly different than introducing them for single reference projects | + | Introducing project elements (template, tables) for MRA projects is slightly different than introducing them for single reference projects. You can use a .sel file, or pass a folder, where files need to stick to a given naming convention. |
== Output === | == Output === | ||
| + | Yo will get a different [[refined table]] and [[iteration average]] for each reference channel and iteration. | ||
Revision as of 10:33, 22 April 2016
In a multireference alignment [MRA] project, each particle will be aligned against R different templates. Multireference projects are mainly used to incarnate the Multireference analysis approach for simultaneous alignment and classification.
The process of multireference alignment
If you have R references and N particles, each particle will be aligned against all the R references. The particle will produce R different cross-correlation scores and R different sets of alignment pararameters. Thus, Dynamowill produce R different refinement tables, each for one reference channel.
Each particle will have a single reference yielding the maximal cc score.
Masks
The fact that you can define alignment masks and classification masks separately in a project is specially useful when running MRA projects. Very frequently, you want to use a wide mask that includes enough signal to drive the alignment, and a smaller mask, defined on the region where you expect or want to check for structural heterogeneity.
Input format
Introducing project elements (template, tables) for MRA projects is slightly different than introducing them for single reference projects. You can use a .sel file, or pass a folder, where files need to stick to a given naming convention.
Output =
Yo will get a different refined table and iteration average for each reference channel and iteration.
