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One of the changes in modeling in berkeley was to support projects that were had multiple instrument runs (of the same type) which should be analyzed together. Records are linked with part_of, for the…
aclum updated
21 hours ago
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Start pulling from the main branch, where I creatd the structure yu need to wokr on this.
Then, taking as reference some Bioconductor vignettes, draft a vignette showing the capabilities of our ama…
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Update the following URL to point to the GitHub repository of
the package you wish to submit to _Bioconductor_
- Repository: https://github.com/Vitek-Lab/MSstatsBioNet
Confirm the following by …
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Hello,
I am trying to use xCell with Proteomics data, before using it I normalized and imputed the data. I also checked the number of genes, the tool requires minimum 5000 genes, my file contains …
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Im looking to analyse my TMT data, my university proteomics core have used proteome discoverer and sent me the output of this. Can I still use Proteoviz for downstream analysis or does it have to be M…
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Hi! I have a question. I don't completely understand how the function filter_se() works. Specifically, this argument 'thr' despite the explanation shown in the source code: The dataset is filtered for…
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Hi,
I was wondering whether it is possible to use xCell to make cell-type enrichment analysis based on proteomics data.
And if so, should one use raw quantification (label-free, for instance) data?
…
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Hello! Great tool you have developed.
I was curious as to the specific preprocessing steps for the proteomic data. For instance, CPTAC LUAD seems to contain 11485 proteins, where the original was …
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Is there any reason to restrict the scope of this project to "neuroscience" ? Couldn't we think about life science in general?
Especially when one consider that neuroscientists sometimes also do me…
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The number of in-house scripting is alarming in computational proteomics by 2019. The use of in-house scripts is the source of:
- [ ] lack of traceability, reproducibility
- [ ] the more complex …