Matplotlib DPL94 R1rho R2eff - Revision history

Bugman: /* References */ Switched to a labelled section transclusion for the citations.

2015-11-06T15:53:15Z

References: Switched to a labelled section transclusion for the citations.

2015-11-03T14:26:20Z

Figures: Switched to parameter templates and cleaned up the maths.

2015-11-03T14:18:38Z

Improved figure placement - they now stay in their section.

2015-11-03T14:15:38Z

Code: Switched to using the new {{collapsible script}} template.

2015-10-15T13:47:40Z

Forced creation of a TOC - this will improve the formatting on the main page 'Did you know...' section.

2014-09-11T07:56:09Z

Category link updates for the specific analyses.

2014-05-07T22:35:42Z

The outcome

2014-03-18T15:33:33Z

Code

2014-03-17T14:40:12Z

The outcome

2014-03-17T14:39:28Z

The outcome

@@ Line 8: / Line 8: @@
 [http://www.nmr-relax.com/manual/Dispersion_model_summary.html Refer to the manual for parameter explanation]
-# Evenäs, J., Malmendal, A. & Akke, M. (2001). Dynamics of the transition between open and closed conformations in a calmodulin C-terminal domain mutant. Structure 9, 185–195 [http://dx.doi.org/10.1016/S0969-2126(01)00575-5 DOI]
+* {{#lst:Citations|Evenäs01}}
-# Kempf, J.G. & Loria, J.P. (2004). Measurement of intermediate exchange phenomena. Methods Mol. Biol. 278, 185–231 [http://dx.doi.org/10.1385/1-59259-809-9:185 DOI]
+* {{#lst:Citations|KempfLoria04}}
-# Palmer, A.G. & Massi, F. (2006). Characterization of the dynamics of biomacromolecules using rotating-frame spin relaxation NMR spectroscopy. Chem. Rev. 106, 1700–1719 [http://dx.doi.org/10.1021/cr0404287 DOI]
+* {{#lst:Citations|Massi05}}
-# Palmer, A.G., Kroenke, C.D. & Loria, J.P. (2001). Nuclear magnetic resonance methods for quantifying microsecond-to-millisecond motions in biological macromolecules. Meth. Enzymol. 339 [http://dx.doi.org/10.1016/S0076-6879(01)39315-1 DOI]
+* {{#lst:Citations|Palmer01}}
-# Francesca Massi, Michael J. Grey, Arthur G. Palmer III* (2005) Microsecond timescale backbone conformational dynamics in ubiquitin studied with NMR R1ρ relaxation experiments, Protein science [http://dx.doi.org/10.1110/ps.041139505 DOI]
+* {{#lst:Citations|PalmerMassi06}}
 === Figures ===

@@ Line 23: / Line 23: @@
 Ref [2], Equation 27.
-Here the calculated value is noted as: $R_{eff}$. : Equation 27: $ R_{eff} = R_{1\rho} / sin^2(\theta) - R_1 / tan^2(\theta) = R^{0}_2 + R_{ex} $. <br>
+Here the calculated value is noted as: {{:Reff}} = {{:R1rho}} / sin<sup>2</sup>(θ) - {{:R1}} / tan<sup>2</sup>(θ) = {{:R2zero}} + {{:Rex}}, where {{:R2zero}} refers to {{:R1rhoprime}} as seen at [[DPL94]]
 Ref [3], Equation 20.
-Here the calculated value is noted as: $R_2$: $R_2 = R_{1\rho} / sin^2(\theta) - R_1 / tan^2(\theta)$ <br>
+Here the calculated value is noted as: {{:R2}} = {{:R1rho}} / sin<sup>2</sup>(θ) - {{:R1}} / tan<sup>2</sup>(θ).  Figure 11+16, would be the reference.
-Ref [4], Equation 43. $R_{eff} = R_{1\rho} / sin^2(\theta) - R_1 / tan^2(\theta)$
+Ref [4], Equation 43. {{:Reff}} = {{:R1rho}} / sin<sup>2</sup>(θ) - {{:R1}} / tan<sup>2</sup>(θ).
-Ref [5], Material and Methods, page 740. Here the calculated value is noted as: $R_2: R_2 = R^{0}_2 + R_{ex}$. <br>
+Ref [5], Material and Methods, page 740. Here the calculated value is noted as: {{:R2}}: {{:R2}} = {{:R2zero}} + {{:Rex}}.  Figure 4 would be the wished graphs.

@@ Line 58: / Line 58: @@
 === The outcome ===
-[[File:Matplotlib 52 N R1 rho theta sep.png|thumb|upright=2|Figure 1]]
+[[File:Matplotlib 52 N R1 rho theta sep.png|center|upright=2|Figure 1]]
-[[File:Matplotlib 52 N R1 rho R2eff w eff.png|thumb|upright=2|Figure 2]]
+[[File:Matplotlib 52 N R1 rho R2eff w eff.png|center|upright=2|Figure 2]]
-[[File:Matplotlib 52 N R1 rho R2eff disp.png|thumb|upright=2|Figure 3]]
+[[File:Matplotlib 52 N R1 rho R2eff disp.png|center|upright=2|Figure 3]]
 == To run ==

@@ Line 68: / Line 68: @@
 === Code ===
-File: '''r1rhor2eff.py'''
-<source lang="python">
+{{Collapsible script
 ### python imports
 import sys
@@ Line 314: / Line 317: @@
 ylabel_R1_rho = r'R$_{1\rho}$ [rad s$^{-1}$]'
-ylabel_R1_rho_R2eff = r'R$_{1\rho, R_{2,eff}}$ [rad s$^{-1}$]'
+ylabel_R1_rho_R2eff = r'R$_{1\rho}$, R$_{2,eff}$ [rad s$^{-1}$]'
 xlabel_theta = 'Rotating frame tilt angle [rad]'
@@ Line 398: / Line 401: @@
 plt.show()
-</source>
+}}
 == Bugs ? ==

← Older revision		Revision as of 13:47, 15 October 2015
Line 1:		Line 1:
		+	__TOC__
		+
	== About ==		== About ==
	The production to these figures relates to the Suppport Request:<br>		The production to these figures relates to the Suppport Request:<br>

@@ Line 403: / Line 403: @@
 == See also ==
 [[Category:Matplotlib]]
-[[Category:Relaxation_dispersion]]
+[[Category:Relaxation_dispersion analysis]]

@@ Line 56: / Line 56: @@
 === The outcome ===
-[[File:Matplotlib 52 N R1 rho theta sep.png|thumb|left|upright=2|Figure 1]]
+[[File:Matplotlib 52 N R1 rho theta sep.png|thumb|center|upright=2|Figure 1]]
-[[File:Matplotlib 52 N R1 rho R2eff w eff.png|thumb|left|upright=2|Figure 2]]
+[[File:Matplotlib 52 N R1 rho R2eff w eff.png|thumb|center|upright=2|Figure 2]]
 == To run ==