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We should have a prototype of an SDRF definition for metabolomics data. EPMA will work with SDRF for the standard metadata for samples for proteomics and metabolomics, and in principle, the file forma…
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### Description of the bug
Hi,
I'm trying to run a minimal experiment to test using the SDRF format to develop a TMT pipeline. I've tried copying the format as best I can, but I don't understand w…
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@ypriverol Do you have a set of SDRF files for experiments of all different kinds of expected flavors?
If not we should systematically generate SDRF example files with all the different labelling t…
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In the following issue #671 we discussed the major changes for SDRF specification during the next release 1.1. One of them, is the extension of SDRF for metabolomics.
> **GOAL**: The aim of adapti…
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Hey,
I noticed the SDRF validator is a bit difficult to maintain and to understand in it's current state, as it is one long python script.
To make it more maintainable and extendable for future c…
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It would be nice to have links to the most relevant repositories and resources related to `sdrf-pipelines` in the `README.md`. e.g. to the https://github.com/bigbio/proteomics-metadata-standard repo.
…
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In the PXD014525 project, the steps in the following figure are used. A raw file contains a mixed protein of Yeast and HELA. And in different raw files, there are different dilution ratios. How shoul…
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@jpfeuffer sometimes the pipeline fails in the id part because of the peak-peaking step by the ThermoRawFileParser. Would be great to "restart" the pipeline, same parameters but with the openms peak p…
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Hi all,
I made a pull request with three exemplary annotations for MSI data to start a discussion: https://github.com/bigbio/proteomics-metadata-standard/pull/450
Here are some thoughts about t…
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Hi, Thanks for providing such a fantastic tool.
We are going to add DIANN's information to OLS @ypriverol, please confirm whether the following information is correct:
- Name of the main score at th…