Processing 3D data with NMRPipe

After conversion you can start to process.
Steps for 3D processing

1. Read in data

2. Process a 1D fid and phase the 1D fid

3. Process 1st plane for Y phase parameters

3D datasets are stored as a series of FID's, in the format test%03d.fid, e.g. test001.fid, test002.fid.....test100.fid


Read in your data

You can read in separate 1D vectors by typing "h" on the NMR spectrum window or by clicking on the Y arrows.
You can read in separate Z planes by clicking on the "Z" arrows.

Phasing in direct dimension
Take out first fid (y=1); make sure you are looking at 1st plane (Z=1)
right click "proc" menu
left click "autoprocess 1D"

Now a 1D processed trace appears
To phase: turn phasing on and shift the P0 and P1 sliders.

Note p0 and p1 values for later:

Determine phase in Y dimension

In the centre window type "m" or use the file menu / macro edit
In the following pop up change certain parameters.
Set the p0 of the direct dimension

For the indirect phase parameters: set them first to zero

Click on save and then execute.
Use NMRDraw to view the 2D plane (Menu/Select File/ test.ft2):

To phase: type "v" on spectrum to get a vertical vector. Use cursor to choose a suitable vector:

As for a 1D turn on phasing and use p0 and p1 sliders to phase:

Now go back to the nmrPipe script menu (type "m") and add the phase corrections in the indirect dimension (here 36.6 + 0 = 36.6):

Click on save and execute. Then look at the new, phased spectrum (file/select file/test.ft2) to check phasing is OK.