This is a read-only mirror of pymolwiki.org

Difference between revisions of "Main Page"

From PyMOL Wiki
Jump to navigation Jump to search
m (2 revisions)
 
(550 intermediate revisions by 50 users not shown)
Line 1: Line 1:
−
== PyMol Wiki Home ==
+
__NOTOC__
−
You have reached the (new) home of the PyMolWiki, a user-driven web-oriented CMS.
+
{| align="center" width="100%" style="background: #B22222; margin-bottom: 4em; border-bottom: 1px solid #B22222; border-left: 1px solid #B22222; border-right: 1px solid #B22222;"
 +
|+ style="font-size: 1.0em; font-weight: normal; color: #FFFFFF; text-align:right; background: #B22222; padding-top:0.5em; padding-bottom: 0.25em; padding-right: 0.60em; border-top: 2px solid #B22222; border-bottom: 1px solid #fff;" |hosted by [[File:SBGridlogo2.jpg|140 px|link=https://sbgrid.org/]]
 +
|}
 +
{| align="center" style="padding-bottom: 3em;"
 +
|+ style="font-size:210%; font-weight: bold; color:#000000; text-align:center; padding: 5px; margin-bottom: 4px;" | Welcome to the PyMOL Wiki!
 +
|- style="text-align:center; font-weight: normal; color: #000000; font-size: 120%; font-family: sans-serif;"
 +
| The community-run support site for the [http://pymol.org PyMOL] molecular viewer.
 +
|- style="text-align:center; font-weight:normal; color: #000000; font-size: 120%; font-family: sans-serif;"
 +
| To request a new account, email SBGrid at:  accounts (@) sbgrid dot org
 +
|- style="text-align:center; font-weight:bold; color: #000000; font-size: 120%; font-family: sans-serif;"
 +
|}
  
−
== [[Initial Wiki Layout Suggestion]] == (Warren Delano)
+
{| align="center" width="45%" style="background: #FFFFFF; margin-bottom: 4em; border-bottom: 1px solid #AFB29E; border-left: 1px solid #AFB29E; border-right: 1px solid #AFB29E;"
−
* [[Mouse Controls]]
+
|+ style="font-size: 1.4em; font-weight: bold; color: #FFFFFF; text-align:center; background: #000000; padding-top:0.5em; padding-bottom: 0.25em; border-top: 2px solid #000000; border-bottom: 1px solid #fff;" |Quick Links
−
* [[Command Language]]
+
|-
−
* [[Atom Selections]]
+
| style="font-size: 1.1em; font-weight: normal; color #48A2B4; padding: 0.5em 1em 0.5em 3em;"|'''[[:Category:Tutorials|Tutorials]]''' || '''[[TOPTOC|Table of Contents]]''' || '''[[:Category:Commands|Commands]]'''
−
* [[Ray-tracing]]
+
|-
−
* [[Movies and Animations]]
+
| style="font-size: 1.1em; font-weight: normal; color #48A2B4; padding: 0.5em 1em 0.5em 3em;"|'''[[:Category:Script_Library|Script Library]]''' || '''[[:Category:Plugins|Plugins]]''' || '''[[:Category:FAQ|FAQ]]'''
−
* [[Cartoon Representations]]
+
|-
−
* [[Settings Reference (all settings and what they do)]]
+
| style="font-size: 1.1em; font-weight: normal; color #48A2B4; padding: 0.5em 1em 0.5em 3em;"|'''[[Gallery]]''' | '''[[Covers]]'''
−
* [[Stereo 3D Display]]
+
||'''[[CheatSheet|PyMOL Cheat Sheet]]''' (''[[Media:PymolRef.pdf|PDF]]'')
−
** [[Hardware Options]]
+
||'''[[PyMOL_mailing_list|Getting Help]]'''
−
** [[Linux XFree86 Configuration]]
+
|}
−
* [[Crystallography Aplications]]
 
−
** [[Symmetry]]
 
−
** [[Electron Density]]
 
−
* [[Arbitrary Graphics Objects]]
 
−
* [[Python Integration]]
 
−
* [[Scenes]]
 
  
−
== [[User Additions]] ==
+
{| width="100%"
−
* [[Installation]] ([[User:Tree|Tree]])
+
| style="vertical-align: top; width: 40%" |
−
** [[Hardware Requirements]]
+
{| class="jtable" style="float: left; width: 90%;"
−
** [[Software Requirements]]
+
|+ style="font-size: 1.4em; font-weight: bold; text-align:left; border-bottom: 2px solid #6678b1;" | News & Updates
−
** [[OS Dependent]]
+
|-
−
*** [[Linux]]
+
! Official Release
−
*** [[MAC]]
+
| [https://pymol.org PyMOL v2.5 has been released] on May 10, 2021.
−
*** [[Windows]]
+
|-
−
*** [[Script Library]]
+
! Python 3
−
----
+
| New [[2to3|Python 3 compatibility guide]] for scripts and plugins
−
* [[NMR Applicaitons]] (Doug Kojetin)
+
|-
−
* [[Plugins/Modules]] (Doug Kojetin)
+
! POSF
−
** [[APBS Plugin]]
+
| [https://pymol.org/fellowship New PyMOL fellows announced for 2018-2019]
−
----
+
|-
−
* [[Plugins]] (Michael George Werner)
+
! Tutorial
−
** [[List of Plugins]]
+
| [[Plugins Tutorial]] updated for PyQt5
−
** [[Tutorial on writing plugins]]
+
|-
−
** [[Others]]
+
! New Plugin
−
----
+
| [[PICv|PICv]] is a new plugin for clustering protein-protein interactions and visualization with available data from PDBe
−
* [[Structure Alignment]] (Nat Echols)
+
|-
−
** [[Structure Alignment Editor]]
+
! Selection keywords
−
* [[3rd Party Applications]]
+
| New [[Selection Algebra|polymer.protein and polymer.nucleic]] selection keywords. Thanks everyone who participated in the [https://goo.gl/forms/r0Ck03VTytZQxN4A2 poll]!
−
** [[Movies]]
+
|-
−
** [[Codecs]]
+
! Plugin Update
 +
| [[MOLE 2.0: advanced approach for analysis of biomacromolecular channels|MOLE 2.5]] is an updated version of channel analysis software in PyMOL
 +
|-
 +
! New Script
 +
| [[dssr_block]] is a wrapper for DSSR (3dna) and creates block-shaped nucleic acid cartoons
 +
|-
 +
! Older News
 +
| See [[Older_News|Older News]].
 +
|}
 +
|style="vertical-align: top; width: 40%"|
 +
{| class="jtable" style="float: right; width: 90%"
 +
|+ style="font-size: 1.4em; font-weight: bold; text-align:left; border-bottom: 2px solid #6678b1;" |Did you know...
 +
|-
 +
|<div class="didyouknow" >
 +
<DynamicPageList>
 +
randomcount=1
 +
category=Commands|Plugins|Script_Library|Settings
 +
includepage=*
 +
includemaxlength=1050
 +
escapelinks=false
 +
allowcachedresults=false
 +
resultsheader=__NOTOC__ __NOEDITSECTION__
 +
listseparators=,<h3>[[%PAGE%]]</h3>,,\n
 +
</DynamicPageList>
 +
</div>
 +
<div style="clear: both;"></div>
 +
|}
 +
|
 +
|style="vertical-align: top; width: 18%"|
 +
<DynamicPageList>
 +
imagecontainer=Covers
 +
randomcount=1
 +
escapelinks=false
 +
openreferences=true
 +
listseparators=[[,%PAGE%,|thumb|185px|A Random PyMOL-generated Cover.  See [[Covers]].]],\n
 +
ordermethod=none
 +
allowcachedresults=false
 +
</DynamicPageList>
  
−
----
+
|}
−
[[User:Tree|Tree]] 02:09, 16 Feb 2005 (CST)
 
−
----
 

Latest revision as of 03:21, 22 June 2021

hosted by SBGridlogo2.jpg
Welcome to the PyMOL Wiki!
The community-run support site for the PyMOL molecular viewer.
To request a new account, email SBGrid at: accounts (@) sbgrid dot org
Quick Links
Tutorials Table of Contents Commands
Script Library Plugins FAQ
Gallery | Covers PyMOL Cheat Sheet (PDF) Getting Help
News & Updates
Official Release PyMOL v2.5 has been released on May 10, 2021.
Python 3 New Python 3 compatibility guide for scripts and plugins
POSF New PyMOL fellows announced for 2018-2019
Tutorial Plugins Tutorial updated for PyQt5
New Plugin PICv is a new plugin for clustering protein-protein interactions and visualization with available data from PDBe
Selection keywords New polymer.protein and polymer.nucleic selection keywords. Thanks everyone who participated in the poll!
Plugin Update MOLE 2.5 is an updated version of channel analysis software in PyMOL
New Script dssr_block is a wrapper for DSSR (3dna) and creates block-shaped nucleic acid cartoons
Older News See Older News.
Did you know...

Cheshift

Type PyMOL Plugin
Download https://github.com/aloctavodia/cheshift/archive/v3.6.zip
Author(s) Osvaldo Martin
License GPL


Description

Result of a CheShift analysis.
Colors indicate the difference between predicted and observed 13Cα and/or 13Cβchemical shifts values averaged over all uploaded conformers. Green, yellow and red colors represent small, medium and large differences, respectively. White is used if either the prediction failed or the observed value is missing.
Blue is used to highlight residues for which the agreement between observed and predicted 13Cα and 13Cβchemical shifts can be improved, i.e., if the (χ1 /χ2 ) side-chain

CheShift (pronounced /tʃeʃɪft/) is a software for prediction of 13Cα and 13Cβ chemical shifts and validation of proteins structures. It is based on the idea that the ..→

A Random PyMOL-generated Cover. See Covers.


Retrieved from "http://wiki.pymol.org/index.php?title=Main_Page&oldid=14896"