I accidentally posted this twice. Topic has been addressed in earlier post.
On Friday, January 5, 2018 at 1:44:54 PM UTC-5, Paul Abraham wrote:
>
> Hello,
>
> It seems that the wiki page has very limited information on how to most
> efficiently use the TPP tools. For example, the tool PTMProphet
Hello Paul,
The quickest way to greater understanding on the use of the tools is to execute
the binaries in question at the command line with no options specified. The
output will show information about their usage. For example on my old Linux
install of TPP 4.8, at the command line, I
Hello Paul,
You can get the instructions on using PTMProphet by running the tool on the
commandline without any options. This applies to most of the commandline
tools in the TPP.
When you type "*PTMProphetParser" *into the commandline, you'll get the
following usage statement:
Brian and David,
Thank you for chiming in. Yes, I am aware of the "--help" option that is
available. I was hoping to get a better understanding of PTMprophet in
particular, so thank you for highlighting the upcoming publication. In
regards to PTMProphet, I'd like to use this in conjunction
Hello Zack,
Each evaluated modification site gets a PTMProphet calculated probability
of the modification being at that site. If you mouse over the bar you will
get the value of the probability. You can export the results to xls file
and the ptm_peptide column will show the values next to the
Hi David,
Thanks for posting the path to the PTMProphet documentation--was just
looking for it last night.
After analyzing some data, and when viewing it in the PepXML viewer, what
is the significance of the colored boxes above the individual residues in
the PTMPeptide column? Despite the
