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Hello,
Specifically, I have an integrated Seurat object and I used the "FindMarkers" function to generate a list of differentially expressed genes between two conditions (diseased and control) of…
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Hi Tim,
Would you consider adding a function to call peaks for each cluster? To see some peaks (from rare cell types) might have been missed from calling from the bulk?
Thanks..
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there is a typo in this sentence:
>Single-cell specific methods were found to be especially prone to wrongly labeling highly expressed genes as differentially expressed12.
(the 12 in the end doe…
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Hi, Just an idea: I use seurat (and now also sc customize) and sometimes also DESEQ2 for bulk experiments. I often have to find time to connect the gene lists that come out of a differential expressio…
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# Bug Report
Packages affected:
- [-] sdk
- [ ] etl
- [-] widget
- [ ] http-client
- [ ] http-server
- [x] spa (explorer)
- [ ] OWL/SHACL definitions
### Expected behavior
Docmaps av…
ships updated
11 months ago
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https://mp.weixin.qq.com/s/jR2OdJQPfBAfxSLSYPyqUw
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Thanks for providing this interesting tool. Cool you explain more in-depth how to generate reference profiles? In the [vignette](https://www.bioconductor.org/packages/release/bioc/vignettes/granulator…
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First, thanks for making this package available!
For some QC applications (e.g. MA plots) and comparisons to other methods, it can be useful to see what happens to the control genes (positive, nega…
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Hey thanks for the wonderful code and paper.
in the muscat paper and code when we say sample do we mean different batches of the same underlying starting material. So when we simulate for 2 samples…
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Hello, I have done a de novo assembly and used prodigal in order to predict protein coding gene regions. I then used hmmer to do annotations based off of the pfamA database and got the resulting outpu…