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Hi,
The vignette tutorial is very helpful, but it looks like it assumes we have single cell samples assigned to pseudo-bulks. Is it possible to use PRINT on bulk `.bam` files? If so, how would you…
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Update the following URL to point to the GitHub repository of
the package you wish to submit to _Bioconductor_
- Repository: https://github.com/sagrikachugh/simPIC
Confirm the following by edit…
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# Goal Alignment
**H2 Goal 2: The quality of CZ Census metadata is improved.**
---
# Technical Design
[Tech Spec: Increase the velocity of dataset schema evolution and dataset migration](https://d…
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Build out Manual Endpoint to receive data for failed demuxes.
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Thank you for the package to convert an ArchRProject a SeuratObject!
I have a question about fragments_dir in function ArchR2Signac. Could you provide an example of fragments_dir for the ArchRProje…
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Hi,
Great packaged very helpful package! I was able to use the package successfully in November (with seurat v. 4.4.0).
But now when I try to re-run the code I get the error;
[1] "In Progress:"
…
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Fragment bin group | Resolution
-- | --
36-149 | 1
150-224 and 225-324 | 2
325-400 | 5
I didn't get the point. It feels that this method tends to produce higher counts around the motif bounda…
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I am running the below code;
```
%%time
data = snap.pp.import_data(
fragment_file,
chrom_sizes=snap.genome.hg38,
sorted_by_barcode=False,
)
data
```
And I am receiving the be…
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https://mp.weixin.qq.com/s/SzUd8fWftoVVmmEnN8xfhQ
ixxmu updated
6 months ago
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Hi,
How can I create pseudo-bulk atac count matrix? Also, during summing up the count data, do you binarize it?
Thank you,