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### Description of the bug
```
ERROR ~ Error executing process > 'NFCORE_QUANTMS:QUANTMS:LFQ:PROTEOMICSLFQ (PXD002854-serum.sdrf_openms_design)'
Caused by:
Process `NFCORE_QUANTMS:QUANTMS:LFQ:…
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Hello,
I am new to DEqMS. I am trying to analyze MaxQuant data. I was able to follow the vignettes instructions to process the PXD000279 data. However, when I load my own proteinGroups.txt, I encount…
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Hi Jie,
there is an RNASeq dataset where i'd like to load some associated metadata. It is the "Lee Gambian" dataset in plasmo and host.
The meta data is here:
https://www.ncbi.nlm.nih.gov/pmc/arti…
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Hi after running ORFquant i got all the expected output files ex. gtf file, fasta file, final results file and tmp file but pdf/html reports not produced.
When i tried producing using the ORFquant …
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### Current Behavior
Some MetaProteomics records have non-compliant values in the the `best_protein` and `all_protein` slots. The range of these slots is a `GeneProduct`, which have a range of `id` …
kheal updated
1 month ago
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Hello!
I am currently working on implementing some features on a nextflow pipeline for diann (quantms)(https://github.com/bigbio/quantms/pull/275) and while checking the runs I noticed that
W…
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Dear Brian,
I have a question related to the usage of trimmomatic parameter when performing denovo transcriptome assembly. Upon the usage of the trimmomatic function, it provides the following outp…
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The `hits[].projects` values in a `/index/{entity_type}` response come from one bundle per hit, and are not an aggregate from all the bundles for a given project.
For example, imagine multiple bund…
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**Create a global parameters list**
Terminology between pipelines and shared assets can differ. To help preserve shared content and familiarity between pipelines, subworkflows and modules, it would…
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I encountered an error in GDCprepare.
There are the codes:
`query.exp Add clinical information to samples
Error in xj[i] : invalid subscript type 'list'
`
Thanks.