Do we have any dedicated discussion group for SILAC using aspartio and
express?
On Tuesday, November 14, 2023 at 12:46:34 PM UTC-8 Jimmy Eng wrote:
> I might need some clarification on what you're asking as XPRESS (and
> possibly the other quant tools) does extract the precursor peak intensity
Yes, I do see both peak_intensity and peak_area as XPRESS outputs in the
XML files, and can also view these columns in the PepXML viewer
On Tuesday, November 14, 2023 at 4:35:55 PM UTC-5 Jimmy Eng wrote:
> Hopefully you get what you need from David's response. But just to
> clarify, XPRESS
Hopefully you get what you need from David's response. But just to
clarify, XPRESS writes out both peak_intensity and peak_area when it runs.
So if you do see the "peak_intensity" column in the pepXML Viewer, go to
the "Pick Columns" tab and select "peak_area" as a column to display.
More than
Awesome, thank you so much!
On Tuesday, November 14, 2023 at 3:47:45 PM UTC-5 David Shteynberg wrote:
> Hello Iryna,
>
> The xinteract tool in the TPP, accessed in Petunia interface in [TPP
> Tools] -> [Analyze peptides]) , the option -PREC can be specified in the
> [PeptideProphet Options]
I am using XPRESS in label-free mode and at the moment I am seeing
peak_intensity (which I understand is the maximum peak intensity of the ion
chromatogram) among other outputs. I am looking for the precursor intensity
though, which I do not see.
I think David's answer is what I was looking for
Hello Iryna,
The xinteract tool in the TPP, accessed in Petunia interface in [TPP Tools]
-> [Analyze peptides]) , the option -PREC can be specified in the
[PeptideProphet Options] -> [Enter additional options to pass directly to
the command-line (expert use only!)]. This option will record
I might need some clarification on what you're asking as XPRESS (and
possibly the other quant tools) does extract the precursor peak intensity
and area. And if you just want the peak area for peptide IDs and your
sample isn't isotope labeled, run it in label-free mode where it will
simply pull
Thank you! Do you know if there is any way to extract the precursor peak
intensity with XPRESS (or other TPP tools)?
On Tuesday, November 7, 2023 at 4:32:25 PM UTC-5 Jimmy Eng wrote:
> "peak_intensity" is the maximum peak intensity of the ion chromatogram.
>
> On Tue, Nov 7, 2023 at 1:00 PM
"peak_intensity" is the maximum peak intensity of the ion chromatogram.
On Tue, Nov 7, 2023 at 1:00 PM Iryna Abramchuk
wrote:
> Hello all!
> I am using XPRESS in label-free mode (TPPv6.1.0), and interested in the
> "peak_intensity" output value. I was just looking to confirm whether
>
Hello all!
I am using XPRESS in label-free mode (TPPv6.1.0), and interested in the
"peak_intensity" output value. I was just looking to confirm whether
"peak_intensity" is the precursor peak intensity, or if it's the maximum
peak intensity of the ion chromatogram?
Thank you
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