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**Suggestions and plans**
follow-ups to #119
- Replace pseudo-replicate-based workflow for pseudobulking to sample-based workflow
- Use a more informative contrast for between-cell type gene set e…
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Pascale
- [ ] https://github.com/geneontology/go-annotation/issues/4727
- [ ] annotation-contributors.md
- [ ] collaborations.md
- [ ] contributing-go-term.md
- [ ] contributing-go.md
- [ ] de…
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I have read your paper, but there is a problem that I don't quite understand. The p value of genes is estimated by the p value of transcript difference analysis, and basemean in transcript difference …
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This is somewhere between a bug and a feature request, but posting in Issues so that hopefully users (and future devs) see it: due to its age, ArchR has fallen behind on some of the references data it…
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Input of definitions and list of values can be found:
https://github.com/pha4ge/Wastewater_Contextual_Data_Specification/tree/main/Template
The following table combines the info from above and add…
edsu7 updated
3 months ago
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**Describe the bug**
Hey, thanks for this tool, it is giving me great insight about my dataset. I actually have 2 questions:
### **_1_**
Right now, I am trying to follow the tutorials [here](ht…
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I was thinking about adding [Integrative pathway enrichment analysis of multivariate omics data](https://doi.org/10.1038/s41467-019-13983-9) by Paczkowska et al from the recent PCAWG release.
> 202…
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I want to perform a pathway enrichment analysis using Reactome database. But i do not know how this would be possible using tidymass. Thank you
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DEA modules with explicit output to enable usage as module with subsequent modules (avoiding missing input exception) e.g., for enrichment analysis as input.
Requires loading all metadata files and ex…
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## Part 1: Bash Script for Bedtools Commands (2.5 pts)
Your script correctly implements the necessary `bedtools` commands for sorting, merging, and subtracting the various feature files. You used `be…