hey jimmy, many thanks for the fast answer! actually most of the values i were able to guess but i would have never figured out the peptide start/end location and the # of proteins the peptide ;-)
cheers, andreas On Tue, Mar 16, 2010 at 12:27 AM, Jimmy Eng <[email protected]> wrote: > Here are the output columns. I just updated the source files in to > have the usage statement print these out for digestdb and make it > clearer for pep_dbcount. > > digestdb output columns: > - peptide length > - protein reference > - peptide mass > - previous amino acid before peptide > - peptide sequence > - next amino acid after peptide > - peptide start location > - peptide end location > - pI > > pep_dbcount output columns: > - peptide > - # proteins peptide appears in > - mass > - comma separated protein list > > In order to use pep_dbcount in its intended application, you need to > feed it a peptide sorted output from digestdb. Something like > digestdb somefile.fasta | sort -k 5,5 > digest.output > pep_dbcount digest_output > > > On Mon, Mar 15, 2010 at 2:58 PM, Andreas Quandt > <[email protected]> wrote: > > dear list, > > > > i would like to use pep_dbcount and digestdb for some analysis but i am > not > > sure about the values of the output files. > > hence, it would be great if one of you could shortly explain me which > values > > are displayed there. > > > > many thanks in advance, > > andreas > > > > -- > > 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. > > -- 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.
