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I did run the rtandem successfully but when I am now running the perseGear I get the following error. What could be the problem?
> parserGear(file = idfile, db = dbfile, decoyPrefix="#REV#",xmx=1,t…
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Dear Vadim
When I run one.mzML file on linux, I have no problem. When I run multiple.mZML files, I report an error:
ubuntu@node188:~$ ./1/diann-linux --f data2/1.mzML --f data2/2.mzML --fasta data…
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Hello Prof. Ivanov,
It's me, Jim, again and this is a sincere request for assistance. Thank you very much.
When using Biosaur2 to process a glycopeptide DDA MS data, there are some peptide …
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Workflow "Peptide Identification from MS": I have downloaded the workflow and the third nod named "Search Engine combination" ist not working. I have checked -> right click -> component > open, there …
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### Description of feature
@daichengxin #contributors
With the support of SAGE by quantms, we have opened the possibility to support a quantms open-search workflow. I recommend the following ste…
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Dear respected author, hello!
I am currently conducting the database search work of immune peptidomics.
May I ask, apart from simply setting the threshold of peptide false discovery rate (pep FDR),…
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Organize thoughts and outlines with Lesli about data needed for the clustering algorithm. Make sure that the outlines are clear so that we can move forward to Q5 seamlessly. Provide an outline of the …
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# Title
Making sense of internal fragment ions
# Abstract
Peptide identification from fragment mass spectra uses only part of the contained information. Here, internal fragment ions, i.e. pep…
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Hi there, thanks for developing this package. I'd like to suggest an enhancement to the filter_proteotypic_peptides() function. As I understand the function currently, it identifies proteotypic peptid…
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Hi,
We are running some data through DIA-SpecLib-Quant pipeline and we find that several peptides are quantified at wrong retention time (we check the chromatograms in Skyline) as shown in this corre…