[spctools-discuss] Why not use ASAPRatio to analyse quantitative data of 18O in TPP 4.31

command "C:/Inetpub/tpp-bin/ASAPRatioPeptideParser "interact.pep.xml" - lc -r0.5" exited with non-zero exit code: 1 QUIT - the job is incomplete command "c:\Inetpub\tpp-bin\xinteract -Ninteract.pep.xml -p0.05 -l7 - Of -A-lc-r0.5 c:/Inetpub/wwwroot/ISB/data/HWJ/F002370.pep.xml&qu

[spctools-discuss] How to normalise peptide in TPP

Hi everyone I have two questions when using in TPP, The one is: Whether normalise peptide is necessary in analysis quantification mass spectrum data. The second is: How to use normalise in TPP. If you know please tell me. Thanks Bright

[spctools-discuss] How to change the workspace of TPP

Hi every I am not enough space to store raw data in C: disk , so I have to change work space in TPP but i can't. If you know please tell me . Thank Bright --~--~-~--~~~---~--~~ You received this message because you are subscribed to the Google G

[spctools-discuss] Can't get the last version TPP

Hi I want to download the last version TPP, but I can't open download web page: http://sourceforge.net/projects/sashimi/files/Trans-Proteomic%20Pipeline%20(TPP). Could you tell me the way to get the last version TPP, if you know. Thank very much B

[spctools-discuss] What the mean of "LIBRA (0)","LIBRA (1)".."LIBRA (n)" in .prot.xml

ld you tell how the understand the mean of LIBRA (n), -9.00 ± -9.00 and ± 99.99 if you know. Thank you Bright --~--~-~--~~~---~--~~ You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To post to th

[spctools-discuss] Why not run Combine Analyses in TPP v4.2 JETSTREAM rev 1, Build 200904071723 (MinGW)

SB/data/ShiDa/1.pep.xml c:/Inetpub/wwwroot/ISB/data/ShiDa/10.pep.xml interact.iproph.pep.xml" failed: Unknown error Thank you Bright --~--~-~--~~~---~--~~ You received this message because you are subscribed to the Google Groups "spctools-discuss"

[spctools-discuss] Why not run Analyze Proteins when sample label by iTRAQ

bin\xinteract.exe -Ninteract.pep.xml -p0.05 - l7 -Ofp -Lcondition.xml-1 c:/Inetpub/wwwroot/ISB/data/LiuXiaoHui/ F003217.pep.xml" failed: Unknown error Command FAILED Can you tell me the reasons why happend it. I will appreciate for your help. Thank your Bright --~--~-~--~~---

[spctools-discuss] How to use the residue mass parameter in XPress and ASAPRatio

label model. The parameter one is "Change XPRESS residue mass difference" in XPRESS the other is "Specified residue mass" in ASAPRatio. If possible, could you show a example for me. Thank very much. Bright --~--~-~--~~~---~--~~ You received this mes

[spctools-discuss] What the meaning of "ASAPRatio: 1.94 ± 1.96(3)[1.35 ± 1.37]"

er the ratio of ASAPRatio is the differentia ratio of same protein in different sample? Thanks Bright --~--~-~--~~~---~--~~ You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To post to this group, send

[spctools-discuss] A question about using ASAPRatio

ead to failure of program but I can't sure. If you know please help me . Thank. Bright --~--~-~--~~~---~--~~ You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To post to this group, send ema

[spctools-discuss] A question about using ASAPRatio

ead to failure of program but I can't sure. If you know please help me . Thank. Bright --~--~-~--~~~---~--~~ You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To post to this group, send ema

[spctools-discuss] A question about using ASAPRatio

ead to failure of program but I can't sure. If you know please help me . Thank. Bright --~--~-~--~~~---~--~~ You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To post to this group, send ema

[spctools-discuss] Are these selectitems OK?

t;Run peptidePropet", selected "Run ProteinProphet afterwards" In "ASAPRatio Options": selected "Run ASAPRatio",selected "c" in list of "Change laeled residues" Finally clicked Run XInteract. Question: 1. Are these selec

[spctools-discuss] How to set selectitemes in analyze peptides web pape of TPP v4.2 for isotopic labeling

Hi everyone I need your help to deal with the question which how to set that selectitemes which in analyze peptides web pape of TPP v4.2. My sample was labeled by O18. Bright --~--~-~--~~~---~--~~ You received this message because you are subscribed to the

[spctools-discuss] How to analyse quantitation data of isotopic labeling

Hi everyone: I get some quantizations data of O18 labeling and convert them to *.pep.XML files but I don't know how to set correct property in Analyze peptides web page for analyze peptide data in *.pep.XML files. Please help me. Thanks --~--~-~--~~~---~--~~ You

[spctools-discuss] How to analyse quantitative data of O16 and O18

I get some search result of O16 and O18 using Mascoat search engine which files are *.dat. I want to get protein quantitative data which have been isotope labeling. If somebody knows how to deal with it please guide me to finish this work. Thank your Bright

[spctools-discuss] How to analyse quantitative data of O16 and O18

I get some search result of O16 and O18 using Mascoat search engine which files are *.dat. I want to get protein quantitative data which have been isotope labeling. If somebody knows how to deal with it please guide me to finish this work. Thank your Bright

[spctools-discuss] How to analyse O16 and o18 pepXML file in TPP

I get some pepXML files of O16 and O18 but I don't know how to use TPP tools ot analyse that files. The files come from Mascot search result. Thanks --~--~-~--~~~---~--~~ You received this message because you are subscribed to the Google Groups "spctools-discuss

[spctools-discuss] Re: How to convert mzXML file to mgf file

I have solved it. The prgram mzXML2Search have been installed follow by TPP installed. Thank your very much for your kind. Bright On 2月17日, 上午2时13分, Matthew Chambers wrote: > It depends what you want to use the MGF for. I think the TPP pipeline > for the near future should continue

[spctools-discuss] Re: How to convert mzXML file to mgf file

I have solved it. The prgram mzXML2Search have been installed follow by TPP installed. Thank your very much for your kind. Bright On 2月17日, 下午10时04分, Matt Chambers wrote: > Do you mean mzXML2Search instead of Mascot2XML? I agree that spectrum > averaging should be a more universal f

[spctools-discuss] Re: How to convert mzXML file to mgf file

I have solved it. The prgram mzXML2Search have been installed follow by TPP installed. Thank your very much for your kind. Bright On 2月17日, 下午7时33分, Bill Nelson wrote: > We were never able to switch one of our labs over to TPP because they > use ABI Q-TOF with Mascot and the Mascot

[spctools-discuss] Re: How to convert mzXML file to mgf file

I have solved it. The prgram mzXML2Search have been installed follow by TPP installed. Thank your very much for your kind. Bright On 2月17日, 上午1时52分, "Brian Pratt" wrote: > The msconvert tool should handle that: > > To convert foo.mzxml to foo.mgf > >

[spctools-discuss] where to download mzXML2Search?

Could someone direct me to where to download where to download mzXML2Search? I can't seem to find one . Thanks -Bright --~--~-~--~~~---~--~~ You received this message because you are subscribed to the Google Groups "spctools-discuss" group.

[spctools-discuss] How to convert mzXML file to mgf file

Hi everyone I can't deal with the problem that convert mzXML file to mgf file. Could your give me some ideal to over it. Thank. --~--~-~--~~~---~--~~ You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To post t