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Hi @hendrikweisser
Chromatogram extraction step produces several Gbs(e.g., 3 Gb) on a reasonably sized LC-MS map.
Is this expected (ca. 30000 IDs, not merged / no external IDs)?
If so, do you see …
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From https://sentry.galaxyproject.org/share/issue/da466f63ec5541e58db2ce827ada3918/.
I can't see any use of `$protein` in the configfile, but this is not easy to read.
These were the selection optio…
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I tested on the test dataset of nextneopi (https://github.com/icbi-lab/nextNEOpi). I has a similar session for using the arriba to get the fusion genes. From those fusion genes, it can get the peptide…
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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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I just [archived](https://web.archive.org/web/20180401223224/https://tools.wmflabs.org/scholia/work/) the [landing page for the work aspect](https://tools.wmflabs.org/scholia/work/).
There, we curr…
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Quantitative Behavior of Mass Spectrometers
To apply the theory we learnt in the last chapters of this unit to quantitative analyses with mass spectrometers, we need to think about the limitations th…
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### Description of the bug
Im processing a dataset using proteomicsLFQ and it fails when it found empty list of peptides in one of the idXMLs.
```
TOPPBase.cpp(1605): Value of string option 'kee…
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Hello,
First, thank you for this wonderful package! I've been testing different workflows and have a question regarding peptide filtering/feature selection and how it is used for downstream normali…
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Hello,
I am using a reference genome of Folsomia candida available via NCBI's datasets for RNA-Seq expression studies. A part of the gene/transcript annotation contains multiple mRNA / CDS annotatio…
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Hello there.
We'd like to use the xQuest importer for our searches. However, we are using a light-heavy workflow for our samples.
Unfortunately the importer only supports light-light searches at t…