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 <quandt.andr...@gmail.com> 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 spctools-disc...@googlegroups.com. > To unsubscribe from this group, send email to > spctools-discuss+unsubscr...@googlegroups.com. > 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 spctools-disc...@googlegroups.com. To unsubscribe from this group, send email to spctools-discuss+unsubscr...@googlegroups.com. For more options, visit this group at http://groups.google.com/group/spctools-discuss?hl=en.
