Diff for "Workshop2011"

Differences between revisions 1 and 15 (spanning 14 versions)

Material for NCMI 2011 Workshop on CryoEM Single Particle Analysis

This page contains several links (in the table below) to the software and data you need to download for each of the specific tutorials at the workshop. People using the on-site desktop PCs do not need to install anything in advance, unless they wish to do something on their laptops as well.

Pleae note: You will need to have everything installed and working on your laptop before the workshop. We are happy to help you with installation/setup problems via email before the workshop, but we cannot individually help 90+ laptop users AT the workshop with installation problems. If you do not wish to participate in one or more of the tutorials below, you can, of course, skip that section. We are covering a wide range of different software, so if you participate in all of the tutorials, it may take 2-3 hours (or more if you have slow network connection) to set everything up.

The agenda, which will be populated gradually with the presentations and tutorials can be found at Ws2011/Agenda.

UPDATE: Linux and Mac users may now download the 2.01 release of EMAN2. Windows users will have to wait a bit longer...

Required software/data:

EMAN2	General purpose image processing and refinement	Used throughout the workshop. This link does NOT contain ALL the data for all the tutorials
Chimera	Visualization/Interactive post procesing	Used throughout the workshop.
Gorgon	Model building, secondary structure detection	Tutorial on day 4
Rosetta	High resolution model building	Used for mini-tutorial on day 4
DireX	Dynamic modeling	Demo on day 4
EMEN2	Database/Electronic Notebook	Demo/tutorial on Day 4
Frealign	Single particle refinement	EMAN2/Frealign tutorial on day 3

Data only:

SPARX	demo data for day 2
Segger	Brief demo/tutorial Day 3
Single particle tomography	EMAN2 used for processing. Tutorial day 3

-  ⇤ ← Revision 1 as of 2011-01-30 18:16:50 → 
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+   ← Revision 15 as of 2011-03-14 02:22:24 → ⇥
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-This page will house links to the various software and sample data sets for the workshop.
It is currently being constructed.
+This page contains '''several links''' (in the table below) to the software and data you need to download '''for each of the specific
tutorials''' at the workshop. People using the on-site desktop PCs do not need to install anything in advance,
unless they wish to do something on their laptops as well.
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- * If you are a speaker, please follow the below template and create a page for your session.
 * if you are a participant, please do NOT begin downloading items on this page, as they may still change significantly. I will make an email announcement when the site is ready.
+Pleae note: You will need to have everything installed and working on your laptop before the workshop. We are happy
to help you with installation/setup problems via email before the workshop, but we cannot individually help 90+
laptop users AT the workshop with installation problems. If you do not wish to participate in one or more of
the tutorials below, you can, of course, skip that section. We are covering a wide range of different software, so
if you participate in all of the tutorials, it may take 2-3 hours (or more if you have slow network connection) to set
everything up.

The agenda, which will be populated gradually with the presentations and tutorials can be found at [[Ws2011/Agenda]].


'''UPDATE: Linux and Mac users may now download the 2.01 release of EMAN2. Windows users will have to wait a bit longer...'''
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-||EMAN2||Multi task image processing||Used throughout the workshop.||
||SPARX||Multi task Image processing||Software comes with EMAN2 distro, demo data for day 3||
||Chimera||Visualization/Interactive post procesing||Used throughout||
||Frealign||Single particle refinement||EMAN2 integration tutorial/demo on day 2||
||Gorgon||Model building, secondary structure detection||Tutorial on day 4||
||Rosetta||High resolution model building||Used for intro on day 4||
||Segger||Interactive segmentation||Distributed with Chimera, used on Day4||
+||[[Ws2011/Eman2|EMAN2]]||General purpose image processing and refinement||Used throughout the workshop. __This link does NOT contain ALL the data for all the tutorials__||
||[[Ws2011/Chimera|Chimera]]||Visualization/Interactive post procesing||Used throughout the workshop.||
||[[Ws2011/Gorgon|Gorgon]]||Model building, secondary structure detection||Tutorial on day 4||
||[[Ws2011/Rosetta|Rosetta]]||High resolution model building||Used for mini-tutorial on day 4||
||[[Ws2011/DireX|DireX]]||Dynamic modeling||Demo on day 4||
||[[Ws2011/Emen2|EMEN2]]||Database/Electronic Notebook||Demo/tutorial on Day 4||
||[[Ws2011/Frealign|Frealign]]||Single particle refinement||EMAN2/Frealign tutorial on day 3||

Data only:
||[[Ws2011/Sparx|SPARX]]||demo data for day 2||
||[[Ws2011/Segger|Segger]]||Brief demo/tutorial Day 3||
||[[Ws2011/Spt|Single particle tomography]]||EMAN2 used for processing. Tutorial day 3||