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It would be helpful to have a signal condition (either error or warning message) that will be activated when a user requests annotations for a mouse Fc or other non-human protein that doesn't have a c…
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Hello,
Thank you for making very useful tool. I do have one question regarding setting up contrast for limma vs lmer. I am using somasccan data if its making any different.
I have contrast as ma…
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Proteomics:
- [x] Send demonstration for SPPCA @austinTalbot7241993
- [ ] (stretch) Follow Eric Dammer's pipeline @akotlar
- [ ] (stretch) Replace Eric Dammer's network analysis with SPPCA and compa…
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- [ ] Look at the [list](https://docs.google.com/spreadsheets/d/1wNtmceBQwZu71gmQ1Z48yqNdV0zNu9WfZJ5IAhoRnMw/edit#gid=845169585) of data types cohorts are collecting and determine existing nextflow/CW…
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Proteomics:
Goal: Wrap up proteomics methods
- [x] Take data cleaning analysis w/ preprocess step that separates out somascan and TMT, see effect of domain adaptation before combining vs combined @ak…
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Dear all,
Thank you for this very interesting work.
In your manuscript it is mentioned that your approach is platform agnostic. I was wondering whether your model's code can be adapted to run on…
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## The Problem
Hi and thanks in advance. I am working with a SomaLogic file from 5 years ago, with proteomic data derived from serum samples. The file is in the standard SomaLogic format - I have i…
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I've been working on setting up my project to run with tensorQTL, but when I run the cis.map_cis() function to get cisQTLs with permutations, the pval_nominal_threshold column is missing from the resu…
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Due date: June 6 2024
Documentation
- [ ] Separate out annotator description/perl side including performance figures, describe every piece that repo has including Machine Learning subsection, Bioinf…
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Hi SomaDataIO Devs,
Both the release notes for `6.1.0` and the current README reference the existence of vignettes that illustrate four types of primary analyses that are commonly performed on Soma…