quantms
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bigbio
Quantitative mass spectrometry workflow. Currently supports proteomics experiments with complex experimental designs for DDA-LFQ, DDA-Isobaric and DIA-LFQ quantification.
### Description of feature A request for QuantMS to support analysis of samples that contain different sets of post-translational modifications (e.g. samples enriched for phosphorylated proteins vs samples that are...
### Description of feature Hello, I noticed that in assets, a TMT16plex default correction matrix is missing. Is it possible to add it? Many thanks!
### Description of feature It would be useful if more than one enzyme could be selected rather than just one. I understand that not all tools allow multiple enzymes digestion...
### Description of the bug ``` The exit status of the task that caused the workflow execution to fail was: 9 Error executing process > 'BIGBIO_QUANTMS:QUANTMS:LFQ:ID:PSMRESCORING:PERCOLATOR (200ngHela-MudPIT-v1-107)' Caused by: Process...
### Description of the bug @timosachsenberg I thought this PR https://github.com/OpenMS/OpenMS/pull/7714 added `Chymotrypsin/P` in OpenMS. ``` The exit status of the task that caused the workflow execution to fail was:...
### Description of feature I am considering whether it is possible to use quantms without adding any sdrf files, because my current research only needs to obtain protein abundance. If...
### Description of feature I would like to request the addition of a feature to support TMT18plex as a labeling type. Currently, the largest plex option is TMT16plex, so if...
### Description of feature Currently, quantms have seven major categories for resources or processes: ```nextflow withLabel:process_single { cpus = { 1 } memory = { 6.GB * task.attempt } time...
### Description of feature I tested identification workflow for timsTOF dataset in last week. The first step is to execute the tdf2mzml module and then run the same analyses as...
We should really cleanup our module config. It can be heavily simplified. For most of the modules we only add a config to export log files? We could add a...
