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**Describe the bug**
I followed suggestions from previous posts to revert to an older R version (e.g. 4.1.3) because ArchR would not install with the updated R 4.4. However, I still can't install A…
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Installing package into ‘/home1/ks85359/R/x86_64-pc-linux-gnu-library/4.2’
(as ‘lib’ is unspecified)
ERROR: dependency ‘rhdf5’ is not available for package ‘ArchR’
* removing ‘/home1/ks85359/R/x86_…
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hi, i was try to subset the archr project according the cell type, the bigger archr project has call peak and when i subset and when i try to call peak this new and smaller archr project , i found the…
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Currently, many new analytical needs have emerged in single-cell ATAC-seq. Why doesn't ArchR consider accommodating them?
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Hi, @rcorces @jeffmgranja @jgranja24 @keyuxi
I would llke to copy my entire ARCHR project cluster, embedding, umap ... into a seurat object but I do not succed to copy embeddings
I try many thi…
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Hi,I am using the scATAC seq data from your article 'Multi-omic profiling reveals widespread dysregulation of innate immunity and hematopoiesis in COVID-19'. The effect of using Signac software for …
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### Is there an existing module for this?
- [X] I have searched for the existing module
### Is there an open PR for this?
- [X] I have searched for existing PRs
### Is there an open issue for this…
heylf updated
7 months ago
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Hello,
I am using a package called ArchR to do ATACseq analysis. ArchR uses TFBSTools to extract motifs. I noticed there is only 633 TF extracted from Jaspar, but I think the number is much higher …
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I don't want to show the task marker (peak information) on the side when drawing. Please help me.
The code and error are as follows:
>heatmapPeaks
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Hi, I am trying to take a peak by count matrix generated using another software (SnapATAC2) which similar to ArchR produces a tile matrix and make this compatible with SCENIC+. The link showing a tuto…