Is there a way to apply first point scaling in the absence of a window function (the -c option)? I was making up a processing tutorial and wanted to put this...
Tara, You can always just apply a apodization function that is always one and include the -c 0.5 option at the end. For example: nmrPipe -fn EM -lb 0.0 -c 0.5...
Sure: MULT -c 0.5 -xn 1 I suppose you might also consider: EM -lb 0 -c 0.5 which has the advantange that it would record the first-point scaling value, and...
Hi All, I am trying to convert my nmr pipe data to nmr view format (.nv). I am using Mac osx 10.5.6 version. Earlier I have used sparky for the conversion...
You can convert to NMRView with the following type of script: #!/bin/csh/ xyz2pipe -in ./data/hncacb%03d.dat -verb \ ... Shaheen ... -- Shaheen Shojania c/o...
Thanks for the reply. But I have my input files with .ft extension (like .ft3 for HNCACB) rather than with .dat extension. Do I have to reprocess my data to...
No you do not have to change from ft to dat format. Just change the script to suit you file path and name. Shaheen ... -- Shaheen Shojania c/o Lawrence...
Hi I have installed NMRPipe (Linux version) in Root directory, and its working properly. But when it is executed from any user account rather than root, it ...
Most of the stuff below is covered in the install instructions ... We usually recommend against installing the software as root, to avoid permission issues and...
Quick note on point 1: You can also include the lines listed in README_NMRPIPE_USERS files as an appropriately named script in /etc/profiles.d on most recent...
Hi I have recently installed NMRpipe on a local linux computer but are having issues with several commands such as bruker running of fid.com scripts The...
Hi, When I try the following: #!/bin/csh nlinLS \ -in test.tab -list nlin.spec.list \ -mod GAUSS1D GAUSS1D EXP1A1D \ -w 5 4 6 \ -out nlin.out -verb I get ...
Jeff Ellena
jfe@...
Feb 27, 2009 7:19 pm
1866
Hi ... Use of nlinLS is usually done via the script autoFit.tcl ... See the file relax.tar.Z from the NMRPipe download site for an example of the kind of ...
Dear Pipers, Decided to request posting of this update about NMR Wiki on your discussion group since there were some significant developments since the last...
Hi. Okay, it has been awhile since I thought about this stuff, but I am trying to re-learn the origin of what I always called the "anti-diagonal"; i.e. the...
Hi, all, I am looking for the nomenclature for the n-terminal acetyl and C-terminal amine group in TALOS and DYNAMO program. For example, I have a peptide that...
Hi, Frank, Thanks for your reply. I just created a script "act" by modifying the "dynamo/params/protein/gly" script to the following, proc add_act {seg resID}...
Yes, you should be able to add N-terminal acid and C-terminal amine to a DYNAMO structure as custom residue types. However, TALOS will not be able to account...
Dear Frank, Thank you so very much for your quick response. I really appreciate it. I feel pretty ignorant to ask you this: 1) How do I extract the NOE...
Dear Frank, Thank you so very much for your quick response. I really appreciate it. I feel pretty ignorant to ask you this: 1) How do I extract the NOE...
Hi, Frank, Thanks for your reply. I just created a script "act" by modifying the "dynamo/params/protein/gly" script to the following, proc add_act {seg resID}...
Hi Everyone, My name is Marc. I am a graduate student just getting started with biomolecular NMR. I am working on a 6 amino acid peptide that binds to DNA....
I¹m not an expert yet either (I¹m a graduate student too), but I might be able to help with a few things. ... Re: [nmrpipe] my first post Im not an expert...
Hi Marc, If you are running VnmrJ, you can use BioPack to calibrate all the parameters for the triple resonance experiments. Start by running ghn_co and...
DeRose, Eugene (NIH/N...
derose@...
Mar 26, 2009 12:55 am
1879
As fellow Pipers know, "RTFM" means "Read through Frank's Manuals". Some day, they will all be in one place, and well organized. Until then ... * There is a...
Hi, I have used Sparky to assign and integrated the cross peaks from NOE spectra. Now I am looking for the extraction of NOE distances from NOESY. Does anyone...
Oh, by the way, when I said "they will all be in one place, and well organized" ... I meant the manuals, not the Pipers. Pipers are already perfect as they...
Hi, Has anyone added any custom residue into a DYNAMO structure successfully? I am trying to add N-terminal Acetyl group and C-terminal Amide group to DYNAMO...
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