>> I think you would want to acquire fragmentation spectra with Orbitrap HCD?
>>
>>
>>
>> *From:* spctools-discuss@googlegroups.com <
>> spctools-discuss@googlegroups.com> *On Behalf Of *Yasir Ahmed
>> *Sent:* Thursday, September 8, 2022 2:19 PM
>&
f Of Yasir Ahmed
> Sent: Thursday, September 8, 2022 2:19 PM
> To: spctools-discuss@googlegroups.com
> <mailto:spctools-discuss@googlegroups.com>
> Subject: Re: [spctools-discuss] Libra quantification on TMT 16-plex returns
> zeros only
>
>
> Hi Luis,
>
>
Hello Yasir,
Can you try re-running Libra without the centroiding option? (i.e. set
type="0") Or are your mzML data not centroided?
Another thing to try: are you able to open the PeptideProphet + Libra
results in the PepXMLViewer? You should be able to see if there are a
significant number of
Greetings,
I'm having difficulty performing TMT quantification using Libra on a
16-plex dataset. Basically, the "quantification.tsv" file that Libra
outputs only contains zeros for both peptides and proteins. The Comet
search runs just fine. I'm at a loss for where things are going wrong. The
