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We have over 20,000 mzML data files and their corresponding quant files. When we tried to use Diann to merge them into a protein matrix, we encountered the error message "/var/spool/slurmd/job532496/s…
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this is my code `java -Xmx3500M -jar /lustre/user/lixue/tools/MSGFPlus/MSGFPlus.jar -s /lustre/user/lixue/output/WES/tmp_output/mzml/FUSCCTNBC125.mzML -d /lustre/user/lixue/output/WES/tmp_output/7-MUT…
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Hi there, this is an exciting tool; thanks for making it!
Here are a couple of minor requests on input handling:
1) It could be nice to check for file existence prior to generating the fragment i…
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- Describe the issue or question:
Enabling writing sub-mzML fails with FragPipe v21 when the source MS data file is not an mzML file, but does work on v20.
The relevant snippet from the log file…
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Hey,
currently it seems like exporting mzML files from a UNIFI database is not supported for DDA data ("only MSe and HD-MSe data supported at this time).
Is there any other way to export a mzML …
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Hello,
I have converted my wiff and wiff.scan files in mzML (peak picking vendor MS level -1; 32bit; TPP compatibility)
And, with FragPipe, I would like to use DIAUmpire to convert my DIA data in p…
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It seems to me that IsobaricAnalyzer ignores precursor annotations in mzMLs and
only works with the last spectrum up one level. At least in my data I don't think this is true. There is exactly one MS…
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I have cloned comet and compiled successfully on May/06.
1.
I tried to build a peptide index with the -i option from the human proteome but comet failed. I wanted to generate non-tryptic peptides …
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Hi,
I have converted wiff files to mzML with [this container](https://hub.docker.com/r/chambm/pwiz-skyline-i-agree-to-the-vendor-licenses) using the below command:
```
singularity run --env WIN…
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@SiggiSmara , I would prefer to have a less hierarchical structure as possible. But this obviously depends also on the way how the Sciex software stores the data.
I would propose:
A) All files in …