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Collaborators have asked if we could implement a module for performing differential analysis.
After speaking with Dan T., we believe that we can do so in the existing application without bogging t…
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Hi, thanks for your fantastic work. I have paired samples, which are commonly analyzed with paired t-test. Now I am using the MSDAP, how to set the paired parameter in DeqMS, MSqRob, MS-EmpiRe? I am u…
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Hello,
I was using decoupleR for pathway analysis in single cell.
I tried a few lines:
```R
msigdb
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### Operating System
Windows 10
### Other Linux
_No response_
### Workflow Version
v1.2.1
### Workflow Execution
EPI2ME Desktop (Local)
### Other workflow execution
_No resp…
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Hello,
I have recently started using STAGES with RNA-seq data. I did the statistical analysis previously with Rstudio and generated three csv files with p-values and ratios of three different compari…
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Data set reminder section:
- Do you want the slides to now link to your supplementary materials page?
All sections, in the R code, some parts use `=` and others `
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https://academic.oup.com/bioinformatics/article/36/9/2657/5701648
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Hi,
I am a newer in small RNA analysis and I have run the analysis with the pipeline successfully according to your instruction.
But considering the output, I have a doubt about the differentia…
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Add to the workflow a working version of the differential expression analysis step.
Can be addressed after solving #3, #4 and #5.
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### Analysis Environment
- [x] Installation of `scverse` tools
- [ ] #19
### Analysis Steps
- **Preprocessing**
- [ ] #9
- [ ] #14
- [x] #4
- **Cell typing**
- [ ] #16
- [ ] #3
…