Align particles to a reference

[Anindito Sen]

Dear All,

what is the command in EMAN2 to align particles to a  reference ?

regards 

Andy

[Steve Ludtke]

Sorry for the delayed reply to this. Your question is pretty ambiguous. Are you talking about aligning 2-D particle images in the same 3-D orientation to a single 2-D reference projection?  Are you talking about aligning 2-D particles to all possible projections of a 3-D volume? Are you talking about aligning 3-D particles to a 3-D reference (subtomogram averaging)?   You'll need to explain what you're trying to do for anyone to be able to suggest a specific command.

--
--
----------------------------------------------------------------------------------------------
You received this message because you are subscribed to the Google
Groups "EMAN2" group.
To post to this group, send email to em...@googlegroups.com
To unsubscribe from this group, send email to eman2+un...@googlegroups.com
For more options, visit this group at
http://groups.google.com/group/eman2

---
You received this message because you are subscribed to the Google Groups "EMAN2" group.
To unsubscribe from this group and stop receiving emails from it, send an email to eman2+un...@googlegroups.com.
To view this discussion visit https://groups.google.com/d/msgid/eman2/05770906-4e77-432d-bd71-f1100bb51bcfn%40googlegroups.com.

[Sen, Anindito]

Hi Steve,

I should have been more detailed.  I am trying to align 2D boxed particles with a 2D projection of a 3D map. The idea is to get most of the particles orientated to the same direction as the projection and then carry out the reconstruction.  I recall doing it in EMAN with the command 'align2D'. What will be the command to carryout this process using EMAN2.

Regards

Anindito Sen. Ph.D

---

From: em...@googlegroups.com <em...@googlegroups.com> on behalf of Steve Ludtke <slud...@gmail.com>
Sent: Thursday, October 31, 2024 8:05 PM
To: em...@googlegroups.com <em...@googlegroups.com>
Subject: Re: [EMAN2] Align particles to a reference

 

Sorry for the delayed reply to this. Your question is pretty ambiguous. Are you talking about aligning 2-D particle images in the same 3-D orientation to a single 2-D reference projection? Are you talking about aligning 2-D particles to all

ZjQcmQRYFpfptBannerStart

This Message Is From an External Sender

This message came from outside your organization.

 

ZjQcmQRYFpfptBannerEnd

To view this discussion visit https://groups.google.com/d/msgid/eman2/8EF5899C-8729-4E30-BE1F-DB53C0EAAB34%40gmail.com.

[Steve Ludtke]

e2align2d.py 

:^)

On Oct 31, 2024, at 10:17 PM, 'Sen, Anindito' via EMAN2 <em...@googlegroups.com> wrote:

Hi Steve,

I should have been more detailed.  I am trying to align 2D boxed particles with a 2D projection of a 3D map. The idea is to get most of the particles orientated to the same direction as the projection and then carry out the reconstruction.  I recall doing it in EMAN with the command 'align2D'. What will be the command to carryout this process using EMAN2.

Regards

Anindito Sen. Ph.D

---

From: em...@googlegroups.com <em...@googlegroups.com> on behalf of Steve Ludtke <slud...@gmail.com>
Sent: Thursday, October 31, 2024 8:05 PM
To: em...@googlegroups.com <em...@googlegroups.com>
Subject: Re: [EMAN2] Align particles to a reference

 

This Message Is From an External Sender 

This message came from outside your organization. 

To view this discussion visit https://groups.google.com/d/msgid/eman2/SN6PR11MB3213177293A1DA7130009E5CC7562%40SN6PR11MB3213.namprd11.prod.outlook.com.