Subject: Re: [nmr_sparky] sparky relaxation fit problem
From: wang
Date: Sep 14, 2012

Previous: 843

Hi mandar,
Thanks.
I have figure that out I used wrong unit for input.
Tom

--- On Thu, 9/13/12, Mandar T. Naik n.mandar@... wrote:

From: Mandar T. Naik n.mandar@...
Subject: Re: [nmr_sparky] sparky relaxation fit problem
To: nmr_sparky@yahoogroups.com
Date: Thursday, September 13, 2012, 7:43 PM

Hi Tom,
How are the fitted curves with respect to your data? You should inspect few by clicking on the rh output table.

I havent crosschecked my results against NmrView but I have used Curvefit (Palmer lab) and it gives comparable results to Sparky.
-mandar



On 9/14/2012 6:37 AM, webtrekus wrote:
Dear sparky users,
I am trying to get r1 and R2 values
I compared to nmrview. the results from sparky is 100 times smaller that the results I got from nmrview. I dont know what is wrong.
If somebody could help, that will be great.

the following is what I did:

precess the data using nmrpipe, so I can use it in nmrview and sparky (pipe2ucsf out.ft2 out.ucsf).

I picked peaks, and type pc, then pi, fowlloing that I type oc and op to copy all the assigments to other spectra.
the I go the first spectra. type rh the did set up, the input time parameters are 11.2, 22.4, 44.8, 67.2, 89.6. 22.4 and 67.2 (in ms).
then I type rh again, it give me the value which is (T2) about 120, which indicates that R2 will be around 0.01( s-1).
However I also run nmrview, and get intensities, then fit, I got the R2 values around 10-15 (s-1), which is reasonable.

Can somebody tell me why sparky result is much smaller?

I used exact spectra processed by NMRpipe, so the data are exact same.

Thank
Tom