Author: bugman
Date: Thu Aug 21 15:57:17 2014
New Revision: 25174
URL: http://svn.gna.org/viewcvs/relax?rev=25174&view=rev
Log:
Merged revisions 25171-25172 via svnmerge from
svn+ssh://bugman@xxxxxxxxxxx/svn/relax/trunk
........
r25171 | bugman | 2014-08-21 15:49:57 +0200 (Thu, 21 Aug 2014) | 3 lines
Added a subsection to the dispersion chapter of the manual about R1
parameter optimisation.
........
r25172 | bugman | 2014-08-21 15:51:49 +0200 (Thu, 21 Aug 2014) | 5 lines
LaTeX formatting fixes for the dispersion chapter of the manual.
All sentences are now on new lines and spaces after the terminal full stop
have been removed.
........
Modified:
branches/frame_order_cleanup/ (props changed)
branches/frame_order_cleanup/docs/latex/dispersion.tex
Propchange: branches/frame_order_cleanup/
------------------------------------------------------------------------------
--- svnmerge-integrated (original)
+++ svnmerge-integrated Thu Aug 21 15:57:17 2014
@@ -1 +1 @@
-/trunk:1-25170
+/trunk:1-25173
Modified: branches/frame_order_cleanup/docs/latex/dispersion.tex
URL:
http://svn.gna.org/viewcvs/relax/branches/frame_order_cleanup/docs/latex/dispersion.tex?rev=25174&r1=25173&r2=25174&view=diff
==============================================================================
--- branches/frame_order_cleanup/docs/latex/dispersion.tex (original)
+++ branches/frame_order_cleanup/docs/latex/dispersion.tex Thu Aug 21
15:57:17 2014
@@ -189,6 +189,26 @@
The models are described in more detail below and summarised in
Table~\ref{table: dispersion models}.
The parameters of the models and of relaxation dispersion in general are
given in Table~\ref{table: dispersion parameters}.
+
+% R1 parameter optimisation.
+\subsubsection{$\Rone$ parameter optimisation}
+
+For a number of models, the off-resonance $\Rone$ value can be optimised.
+Normally the off-resonance models will use fixed experimental $\Rone$ values
for optimisation.
+However if the experimental values are not loaded, then the $\Rone$ values
will be automatically optimised.
+For finer control of this optimisation behaviour, see the
\uf{relax\ufus{}disp\ufsep{}r1\ufus{}fit} user function (page~\pageref{uf:
relax_disp.r1_fit}).
+The models which support off-resonance $\Rone$ fitting include:
+\begin{itemize}
+ \item `No Rex',
+ \item `DPL94',
+ \item `TP02',
+ \item `TAP03',
+ \item `MP05',
+ \item `NS R1rho 2-site'.
+\end{itemize}
+
+In the future, support for off-resonance effects in the CPMG experiments is
planned (see section~\ref{sect: dispersion: TODO} on page~\pageref{sect:
dispersion: TODO}).
+
\input{dispersion_models}
\input{dispersion_params}
@@ -639,17 +659,18 @@
\end{align}
\end{subequations}
-The advantage of these equations is that you will always obtain the correct
answer provided you have 2-site exchange, in-phase magnetisation and
on-resonance pulses.
+The advantage of these equations is that you will always obtain the correct
answer provided you have 2-site exchange, in-phase magnetisation and
on-resonance pulses.
The term $p_D$ is based on product of the off diagonal elements in the CPMG
propagator, see supplementary Section 3 \citep{Baldwin2014}.
-It is interesting to consider the region of validity of the Carver and
Richards result. The two results are equal when the correction is zero, which
is true when
+It is interesting to consider the region of validity of the Carver and
Richards result.
+The two results are equal when the correction is zero, which is true when
\begin{equation}
\sqrt{\nu_{1c}^2-1} \approx \nu_2 + 2 \kAB p_D .
\end{equation}
This occurs when $\kAB p_D$ tends to zero, and so $\nu_2 = \nu_3$.
-Setting $\kAB p_D$ to zero amounts to neglecting magnetisation that starts
on the ground state ensemble and end on the excited state ensemble and vice
versa.
+Setting $\kAB p_D$ to zero amounts to neglecting magnetisation that starts
on the ground state ensemble and end on the excited state ensemble and vice
versa.
This will be a good approximation when $\pA \gg \pB$.
In practise, significant deviations from the Carver and Richards equation
can be incurred if $\pB > 1$\%.
Incorporation of the correction term results in an improved description of
the CPMG experiment over \citet{CarverRichards72}.
@@ -3661,7 +3682,7 @@
From the non-clustered results, it could be argued that all spins in the
entire system experience the same dynamic process, i.e.\ they have the same
$\pA$ and $\kex$ values.
Such an analysis could be performed at a later stage if desired.
-The dispersion curves for the residue :60 could also be inspected to see
that dispersion is likely to be present and another clustered analysis
including this spin performed.
+The dispersion curves for the residue :60 could also be inspected to see
that dispersion is likely to be present and another clustered analysis
including this spin performed.
The number of clustered analyses performed is up to the user -- imagination
is the only limit.
To start the analysis, open the analysis selection wizard as was performed
previously.
r25174 - in /branches/frame_order_cleanup: ./ docs/latex/dispersion.tex