-
Hi, thank you again for the great tool. I'm sorry for adding some naive questions.
- I assume each factor represents each cell type and the pseudo-bulk counts for each cell type are stored in
`nF1…
-
Hi,
Thanks for posting these workflows. Very helpful!
May I ask how you would modify the R pipeline for differential analysis of multiple treated samples vs multiple controls? Your pipeline mentio…
-
I am trying to work through the tutorial above and it keeps freezing on feature extraction. I have left it for an hour. The output is shown below. Can anyone see what I am doing wrong here?
```
La…
-
hello
i'm trying to analyze m6A modification of our direct RNA seq data with Xpore.
does Xpore work with only one sample..?
-
Hi @ArtRand,
I hope this message finds you well. I have been using the ModKit tool for differential methylation analysis, specifically the dmr pair command. In my analysis, I compared a control sam…
-
I’m experiencing **Error executing process > 'pipeline:makeReport (1)'** this same issue across multiple versions. I’ve tried various versions, starting from the lowest to the newest wf-transcriptomes…
-
I am using the FragPipe software for database searches, and the output file combined_ion.tsv is used for quantification with directLFQ. I plan to perform differential expression analysis using DEqMS, …
-
Hi All,
I would like to know if we could use the paired samples ( same donor sample in two conditions ) for differential splicing analysis. How can I include the pairing information in group file ?
-
Right now, validate-differential expression is made up of two notebooks. One that sets up a practice dataset to compare to, and the second that does the actual comparison. We have to think about how t…
-
- [ ] add module DESEQ2 into the experimental branch