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MBR attempts to map identifications from one run onto peaks in another run. This is incompatible with the multiprotease search because it does not make sense to map IDs from one protease onto another …
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After getting some things wrong on the mzIdentML github project, I now know about isotope labelled cross-linkers.
These have four SII with the same MS:1002511 'value' within the same SIR.
We don…
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Workflow
The search engine definitely plays the most important role in the peptide identification process. As illustrated below, what the search engine itself does is bascically first in silico diges…
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@jbeezley @subdavis @jeffbaumes @wdduncan @dwinston @dehays
Tagging you all as I'm not sure how you all will want to implement this.
I'm including tables that map some of the terms on the website…
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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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Create a page for (single) Protein Analysis (note since we now refer to the "single peptide analysis" page as "Tryptic Peptide Analysis", I would suggest to refer to the "single protein analysis" page…
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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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Hi Vadim,
I am doing limited-proteolysis in proteome. As I use MaxQuant to analyse DDA data, I select semi-specific as digestion type and it will run well with this option. Because I find low amoun…
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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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**Describe the bug**
Hello everyone, currently i am trying to index large peptide fasta files (~50 GB) for peptide searches. This fasta contains 85748938 entries of short peptides (all of them are un…