OK find the same sort of response on my side. I think it really wants the .raw file around since I can produce .out from .dta as long as .raw file is loaded. I can then convert this to .srf that has results. If the .raw file is not there gives error that analysis file does not match results.
Good news is the .out files are gd. so maybe now you can use TPP pipeline .out to pepXML converter (Out2XML). Which leads to "other" tools. You could take .dta and convert to mzXML using TPP then do your sequest search from there. There are many other tools that have been developed to work w/ dtas themselves but hopefully the above works. I am guessing that you have an .mgf because it isnt a Thermo data run? If this is the case then ofcourse you could have taken that proprietary format and converted it then ran it through TPP to get Sequest results as well. Good luck, DD On Wed, Mar 10, 2010 at 4:44 PM, Tamanna S Rahman <[email protected] > wrote: > Hi Darryl, > > Thanks for your lead. > > I could run the the search but could not view the search results in > bioworks. After converting the DTA and OUT files to SRF I could open the > search results but found no hits listed eventhough some of the OUT files has > peptides identified > > Then I brought the DTA and OUT (as well as SRF separately) files to > scaffold and Theres turned out to be no results either. > Any idea why it could happen?? > > Also what are the other tools for sequest search using MGF, DTA etc.?? > > Thanks > Tamanna > > > On Wed, Mar 10, 2010 at 12:14 PM, Darryl Davis <[email protected]> wrote: > >> For dta work try Actions- Sequest search. Choose folders w/ DTAs deselect >> use SRF file. Deselect dta generation. Choose sequest.params file and then >> start search. >> >> If you have mgf or dta format already there are other tools than Bioworks >> to use (ofcourse I state the obvious). >> DD >> >> >> On Wed, Mar 10, 2010 at 11:54 AM, Tamanna Sultana < >> [email protected]> wrote: >> >>> Does anyone knows a way of importing MGF or DTA files to Bioworks for >>> a Sequest search? >>> >>> I have a dataset in *.mgf format and I would like to do a Sequest >>> search. >>> >>> 1. I could not import mgf to bioworks. I know that sequest uses *.dta >>> file for search, so I converted the mgf to dta but failed to import >>> the dta to bioworks. Bioworks seem to accept *.RAW only. >>> >>> 2. I saw under tools in 'Bioworks' I could import spectral data in >>> mzdata format, that did not work either. >>> >>> Anyone have any suggestion?? >>> Thanks >>> Tamanna >>> >>> -- >>> You received this message because you are subscribed to the Google Groups >>> "spctools-discuss" group. >>> To post to this group, send email to [email protected]. >>> To unsubscribe from this group, send email to >>> [email protected]<spctools-discuss%[email protected]> >>> . >>> For more options, visit this group at >>> http://groups.google.com/group/spctools-discuss?hl=en. >>> >>> >> -- >> You received this message because you are subscribed to the Google Groups >> "spctools-discuss" group. >> To post to this group, send email to [email protected]. >> To unsubscribe from this group, send email to >> [email protected]<spctools-discuss%[email protected]> >> . >> For more options, visit this group at >> http://groups.google.com/group/spctools-discuss?hl=en. >> > > > > -- > Tamanna S Rahman > -- > You received this message because you are subscribed to the Google Groups > "spctools-discuss" group. > To post to this group, send email to [email protected]. > To unsubscribe from this group, send email to > [email protected]<spctools-discuss%[email protected]> > . > For more options, visit this group at > http://groups.google.com/group/spctools-discuss?hl=en. > -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To post to this group, send email to [email protected]. To unsubscribe from this group, send email to [email protected]. For more options, visit this group at http://groups.google.com/group/spctools-discuss?hl=en.
