Spectra Format Conversion from NMRPipe Data

Spectra Format Conversion from NMRPipe Processed Data

NMRPipe to Sparky

Type the following command in the UNIX terminal

For a 2D dataset 'gnhsqc.ft2' ([1])

pipe2ucsf gnhsqc.ft2 gnhsqc.ucsf

For a 3D dataset (Routine Processing Procedure for 3D ¹⁵N and ¹³C-edited Experiments)

Use xyz2pipe to combine 2D planes into one single PIPE file (Go to the directory where the 3D planes are stored)

xyz2pipe -in test%03d.ft3 -x > 3D_HNCO.mat

Convert the single PIPE file to UCSF format

pipe2ucsf 3D_HNCO.mat 3D_HNCO.ucsf

Additional information can be found in Sparky Manual

NMRPipe to NMRViewJ

At the end of the processing script (e.g. ft2d.com or nmrproc.com), insert the following two lines:

For 2D dataset (Routine Processing Procedure for 2D Experiment)

nmrPipe -in gnhsqc.ft2 \

|pipe2xyz -nv -out filename.nv

For a 3D dataset (Routine Processing Procedure for 3D ¹⁵N and ¹³C-edited Experiments)

xyz2pipe -in lp/test%03d.ft3 -x \

|pipe2xyz -nv -out filename.nv

References

Updated by Hsiau-Wei Lee, 2011