Hello,
In the Pick and Assign from Roots dialog, in the Windows and Spectra tab,
the mapping of the HSQC dimensions in the 3D windows is specified in the
last column ("Selected Mapping") of the top table. I can't remember how
it makes a guess at that mapping (e.g. I can't remember whether it uses
the Experiment Type Dim mapping) but in any case, if it is wrong you
should be able to double click on the cell and change it. From what you
say, it is (currently) treating the y axis of that second window as the H
bonded to the C rather than the z axis.
On the broad/narrow issue, that is an interesting problem (assuming I am
understanding it correctly). It sounds like we need "local" scaling, so
that the neighbourhood of each peak is scaled appropriately relative to
the centre of the peak. This cannot be done with a global scaling (which
is what the aspect ratio is for) because it would mess up the referencing.
But a "local" scaling is non-trivial to implement, I would say.
Wayne
On Wed, 26 Jan 2011, Nina Christ wrote:
> Hey Wayne,
>
> Q1: Yes thats what I meant. I hope that it will be on the update soon.
> Thanks.
>
> With that same spectrum set up (x 1H, y 1Hnoe, z1 13C and the other x 13C, y
> 1Hnoe, z1 1H) an other question came up or maybe its a bug. When I use the
> Pick and Assign from Roots function and double click on a Root Peak in the
> Links Tab the ccpn navigates to the right position in the x 1H, y 1Hnoe, z1
> 13C window but in the x 13C, y 1Hnoe, z1 1H window only the x 13C, y 1Hnoe
> positions are changed and the z1 1H stays at the last position and I have to
> type it in by hand. Did I missed some settings?
>
> Q2: Thanks for the hind with the Experiment Dimension Mapping. It worked. I
> changed the 1H Reference Experience Dimension in the Experiment Types Tap
> under Reference Dimension Mapping and created a new peak list. Now the peak
> list is mapped correctly.
>
> Q3: The peaks are overlaid but the x dimension in the 13C HSQC-NOESY is very
> broad so that it only looks ok at an aspect ratio of 1 while the 13C
> HSQC-NOESY needs 20. So the peaks are at the right position and correctly
> overlaid but its very hard to look at because they are stretched in the x
> dimension and very thin in the y dimension (I can not see any contours just
> one line for a peak).
>
> Nina
>
> Zitat von Wayne Boucher <[log in to unmask]>:
>
>> Hello,
>>
>> Q1: I assume that what you mean in this case is that the two y axes should
>> keep in sync, e.g. when you zoom, but presumably also when you pan. We
>> actually theoretically allow this to be done but have not given a way of
>> setting it up except via Python code (and I just typed in a whole bunch of
>> Python code for an example project, which seemed to work). So I guess this
>> is on the TBD list to make this available more easily.
>>
>> Q2: This is probably best for Tim to comment on but I don't see why
>> synthetic lists would not behave themselves (modulo bugs of course). So a
>> peak list dimension ordering is determined by the corresponding spectrum.
>> This might be an issue to do with the Experiment Type dim mapping though.
>>
>> Q3: I am not sure I understand the issue here. Normally it should be the
>> referencing that determines how two spectra should be overlaid, and the
>> aspect ratio just determines, for example, what 1 ppm in 1H corresponds to
>> in terms of a ppm range in 13C. If the referencing is correct for both
>> spectra then the peaks should naturally line up in the correct locations
>> (on top of each other, for example, if there are two peaks, one in each
>> spectrum, with the same ppm).
>>
>> Wayne
>>
>> On Wed, 26 Jan 2011, Nina Christ wrote:
>>
>>> Hello,
>>>
>>> I have some problems navigating through and working with my 13C NOESY
>>> spectra with Analysis 2.1.5.
>>>
>>> 1.Question:
>>> I look at my 13C NOESY-HSQC in two windows, one with x 1H, y 1Hnoe, z1 13C
>>> and the other x 13C, y 1Hnoe, z1 1H. Is it possible to synchronize the
>>> zoom between these two windows? The counter level is changed in both
>>> windows simultaneously.
>>>
>>> 2.Question:
>>> I also have a 13C HSQC-NOESY spectra which is loads as H[C]_H.NOESY and I
>>> can view it in the same windows described in Question 1 when I change the
>>> dimension mapping in the Windows pop up, Spectrum&Peak List Mappings. Now
>>> I tried to create a synthetic peak list, which is created but the 1H axis
>>> seem to be rotated. If I change the dimension mapping back to x 1noe, y
>>> 1H, z1 13C the peaks are shown on a vertical line but the noe peaks are on
>>> a horizontal line. Is it possible to changes dimension and peak list
>>> mappings separately? Or is there an other way to work around this?
>>>
>>> 3.Question:
>>> The 13C HSQC-NOESY spectra also has a different resolution than the
>>> NOESY-HSQC so I need different aspect ratios for the windows to view them
>>> properly but I would like to overly them in one window. Is it possible to
>>> change the aspect ratio for one spectra only? Is there an other option
>>> I've missed?
>>>
>>> If anyone could help that would be great.
>>> Thanks.
>>>
>>> Nina
>
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