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dataset: **Geiger et al., Cell 2016**
When in the upload module, select `remove batch effects`
[mmc2-metabolomics_samples_no_duplicates_clean.csv](https://github.com/user-attachments/files/16838…
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Hi,
this is for plotms 5.1. Also placeholder for potential merges from our development side.
For mass spectrometry experts it is extremely important to know the molecular formulas of
the observed…
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Hello,
I am having problems using copyWriteMSdata (to manipulate peak data), from mzML files that have originated from an Orbitrap Fusion. I am using mzR_2.12.0. Specifically, certain CV fields a…
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Hi folks,
Thanks for providing this example of how to apply COSMOS to viral pathogenesis data. I am trying to reproduce your pipeline, and I got as far as runCarnival, but the problem now is that …
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For SiriusAdapter, it is important that the convex hulls are removed from the featureXML files. I currently import pyopenms and work with a small script, but for the snakemake workflow, it is a little…
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Hi Wenmin! Congratulations on your fantastic work concerning metabolic profile of HCM! I am a freshman in the field of metabomics and I want to learn from your code to visualize data from LC-MS. You m…
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@pli888 Focus the proposal on metabolic imaging?
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Hi,
I am executing the portal_client tool (with my iHMP username and password) to download the files using a manifest file as follows:
portal_client -m hmp_cart_e0473170e2.tsv --endpoint-priority FA…
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Dear Karsten Wüllems,
I’m a Ph.D student in France on Brassica napus (rapeseed) specialized metabolites against pathogens. I want to apply your pipeline “Analysis of GRaph mapped Image data NEtwor…
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Hi there,
I've been trying out the NormAE program for some data that I would like corrected for batch effects. Unfortunately I'm getting a "ConnectionRefusedError" among other messages by the console…