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Hello,
cellchat is a wonderful tool!
I ran into the same issue with running addIterativeLSI with my data.
code:
scATAC
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Hi,
I have noticed strange behavior when adding GeneIntegrationMatrix. I have posted a Discussion several months ago but I think it might be useful to open an Issue as well.
Basically, when integr…
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Hi! I was running the tutorial code on tutorial data but couldn't get past doublet scoring. I keep seeing this error. Could you help have a look? Thanks!
```
> ArrowFiles
[1] "ATAC-H134-1.arrow"
…
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Hi, thanks for the great package.
I am tweaking some data I have and need to remake an ArchR projects with new peak set. I ran the addReproduciblePeakSet() command below and it is now having diffi…
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Current analysis pipelines only include celltypewise footprinting analysis. However, if the object is to investigate how a single gene is regulated during some import biological process, there's no ac…
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Problem:
After running the code:
enrichMotifs
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I want to subset a cluster from archr project by running clustree. on this specific cluster and put it back to the archproject.
##### subset cluster9
idxSample
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Hello! I love this package, so thank you so much for a python-native solution to scATAC analysis. It's been indispensable.
I had a question about runtime for the atlas-level dataset. I was reading …
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### What kind of feature would you like to request?
Additional function parameters / changed functionality / changed defaults?
### Please describe your wishes
Hello:
I have multiome snRNA+snATA…
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Hi, I am using the getPeak2GeneLinks in ArchR and my code is
`p2g=getPeak2GeneLinks(Archproj,corCutOff=0.2,resolution=1,returnLoops=F)`
and I got the following results:
![image](https://githu…