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Re: Processing interleaved pseudo 3D Bruker data

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  • jana
    Dear Frank, Thanks for the clear explanation with examples on the usage of the pseudo3D.com. I will try this approach when i collect my data. Best regards,
    Message 1 of 4 , Jun 17, 2012
      Dear Frank,

      Thanks for the clear explanation with examples on the usage of the pseudo3D.com. I will try this approach when i collect my data.

      Best regards,
      Jana.K

      --- In nmrpipe@yahoogroups.com, delaglio@... wrote:
      >
      >
      > Hi All ...
      >
      > Sorry I didn't write sooner. I moved from the DC area to the
      > West Coast this week. Find me in the happy town of Campbell CA,
      > the reputed birthplace of canned Fruit Cocktail.
      >
      > As to this interesting question about interleaved data, here's
      > my thinking ...
      >
      > The example below is double interleaved, and gradient-enhanced.
      > The innermost loop alternates between refocused and coupled data.
      > So the first step would be to seperate the original data into these
      > two parts, and save each separately.
      >
      > Then, the inner loop of either one of these parts would step
      > through the 10 tau values. So, the next step would be to separate
      > R and C into 10 planes each, and then adjust each of these planes
      > for gradient-enhancement.
      >
      > NMRPipe has a utility script called "pseudo3D.com" to help
      > split an interleaved dataset into separate planes. I think this
      > double interleaved data could be handled by multiple uses of
      > "pseudo3D.com" ... the first use would split the data into
      > two parts, then each of the two parts would be split into 10.
      > It might look like this:
      >
      > Convert with "-yT 256" ... then
      >
      > pseudo3D.com -in test.fid -outDir fid -outName test%03d.dat -tau 0 1
      >
      > pseudo3D.com -in fid/test001.fid -outDir r -outName r%03d.dat -tau 0 1
      > 2 3 4 5 6 7 8 9 -grad
      >
      > pseudo3D.com -in fid/test002.fid -outDir c -outName c%03d.dat -tau 0 1
      > 2 3 4 5 6 7 8 9 -grad
      >
      >
      >
      >
      >
      >
      > Quoting jana <jana.jk2006@...>:
      >
      > > Currently, iam trying to implement a pulse sequence which requires
      > > 10 different cpmg delays (tau) and each has two interleaved data
      > > (refocused and coupled). The experiment is recorded as 2D HQSC with
      > > t2= 1024 complex points (i.e total 2048) and t1=256 complex points
      > > (i.e total=512 ; Echo=256,AntiEcho=256). Echo-AntiEcho gradient is
      > > used for frequency discrimination in t1 dimension.
      > >
      > > The pulse program has the following looping structure
      > >
      > > |------------------------------
      > > | |-------------------------
      > > | | |-------------------
      > > | | | |---------------
      > > | | | | |------------
      > > | | | | |
      > > | | | | |
      > > | | | | |
      > > | | | | |
      > > | | | | |------------(t2 number of scans)
      > > | | | |----------------(interleaved refocused/coupling loop = 2 times)
      > > | | |--------------------(cpmg tau loop = 10 times)
      > > | |-------------------------(Echo/AntiEcho selection loop = 2 times)
      > > |-------------------------------- (t1 loop = 256 times)
      > >
      > > Now the problem is i have both interleaved spectra for each cpmg tau
      > > values. Considering the two interleaved spectra to be A and B, can
      > > you provide me a Nmrpipe script which can finally give me
      > > interleaved A or B separately for each tau value?
      > >
      > > If i can get A and B separately, i can use 'addNMR' to add or
      > > subtract subsequently.
      > >
      > >
      > >
      >
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