Example NMRPipe conversion and processing scripts are listed below for VARIAN experiments based on experiment name:

In general use nmrPipe gui to convert the data, the see below for correct usage for ymode or zmode (complex, Rance-kay etc.)



gNfhsqc      "fast" 1H-15N HSQC from Biopack uses watergate for suppression: use COMPLEX

gNhsqc        1H-15N HSQC with gradients for coherence selection, and flip back water suppression: use RANCE-KAY

ghn_cacb    3D hncacb using RANCE-KAY in 15N

gcbca_co_nh   3D cbca(co)nh using RANCE-KAY in 15N


How to Linear Predict for corrupted datapoints in 3D spectra: lpcorrupt

CN noesy 500

hbcbcacocaha 500

hbcbcaconnh 500

hcchtocsy 500

hncacb 500

hnco 500

n15hsqc 500

c13noesy 600

hacaconnh 600

hnca 600

hncacb 600

n15noesy 600

n15tocsy 600

4D Processing with double LP

proc_4d.com



























gNfhsqc
Conversion:

#!/bin/csh

var2pipe -in ./fid -noaswap  \
  -xN              2048  -yN               168  \
  -xT              1024  -yT                84  \
  -xMODE        Complex  -yMODE        Complex  \
  -xSW        12001.200  -ySW         2300.000  \
  -xOBS         599.737  -yOBS          60.778  \
  -xCAR           4.821  -yCAR         118.314  \
  -xLAB              H1  -yLAB             N15  \
  -ndim               2  -aq2D          States  \
  -out ./test.fid -verb -ov

Note if you use the Varian conversion menu then you need to only change yMODE to complex and


Processing:

#!/bin/csh
nmrPipe -in test.fid \
| nmrPipe  -fn SP -off 0.35 -end 0.98 -pow 2 -c 0.5    \
| nmrPipe  -fn ZF -auto                               \
| nmrPipe  -fn FT -auto                               \
| nmrPipe  -fn PS -p0 -155 -p1 0.00 -di -verb         \
| nmrPipe -fn EXT -left -sw                                    \
| nmrPipe  -fn TP                                     \
| nmrPipe  -fn SP -off 0.35 -end 0.98 -pow 1 -c 0.5    \
| nmrPipe  -fn ZF -auto                               \
| nmrPipe  -fn FT -auto                               \
| nmrPipe  -fn PS -p0 0.00 -p1 0.00 -di -verb         \
| nmrPipe -fn TP                                               \
| nmrPipe -fn POLY -auto                                       \
   -ov -out test.ft2


gNhsqc
Conversion:

#!/bin/csh

var2pipe -in ./fid -noaswap  \
  -xN              2048  -yN               168  \
  -xT              1024  -yT                84  \
  -xMODE        Complex  -yMODE        Rance-kay  \
  -xSW        12001.200  -ySW         2300.000  \
  -xOBS         599.737  -yOBS          60.778  \
  -xCAR           4.821  -yCAR         118.314  \
  -xLAB              H1  -yLAB             N15  \
  -ndim               2  -aq2D          States  \
  -out ./test.fid -verb -ov

Note if you use the Varian conversion menu then you need to only change yMODE to Rance-Kay


Processing:

#!/bin/csh
nmrPipe -in test.fid \
| nmrPipe  -fn SP -off 0.35 -end 0.98 -pow 2 -c 0.5    \
| nmrPipe  -fn ZF -auto                               \
| nmrPipe  -fn FT -auto                               \
| nmrPipe  -fn PS -p0 -155 -p1 0.00 -di -verb         \
| nmrPipe -fn EXT -left -sw                                    \
| nmrPipe  -fn TP                                     \
| nmrPipe  -fn SP -off 0.35 -end 0.98 -pow 1 -c 0.5    \
| nmrPipe  -fn ZF -auto                               \
| nmrPipe  -fn FT -auto                               \
| nmrPipe  -fn PS -p0 0.00 -p1 0.00 -di -verb         \
| nmrPipe -fn TP                                               \
| nmrPipe -fn POLY -auto                                       \
   -ov -out test.ft2