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The GSE194122 dataset
The data sets are mentioned in two places, one says eight donors and the other says nine donors. The GEO website seems to have a total of 10 donors in this data set. Did you mak…
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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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I think it would be good to include the results of this benchmarking paper in the ATAC-seq processing section. It does a quantitative comparison of various libraries in the ecosystem and compares them…
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Hello,
I'm trying to run Augur on single-cell ATAC-seq data on human PBMCs from healthy vs disease subjects.
However, I am getting the following error: "no cell type had at least 20 cells in all con…
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Hi,
Thanks for developing such an excellent tool for single-cell genomics. I am wondering whether you could provide the processing pipeline for Easysci-ATAC-seq.
Thanks.
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Hi @smorabit,
I would like to know if it is possible to use hdwgcna with single Cell ATAC coverage data instead of the SC RNA-seq expression matrix. How should the metacells function be handled? Wh…
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Hi,
I read your Nature publication (https://doi.org/10.1038/s41467-018-07771-0) and would love to generate aggregate single cell profiles in figure 3A and 4D's bottom panel for my data.
Could …
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editor preferred term: single-nuclei ATAC-seq
alternate terms: snATAC-seq
textual definition: Analysis of the transposase-accessible-chromatin in single nuclei isolated from frozen tissue samples th…
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Hello,
Thanks for this very useful package!
I just have a few questions after runnning on single-cell ATAC-Seq libraries generated from the 10X multiome kit. I ran using the following commands:
…
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Relative to https://github.com/mc2-center/data-models/issues/49 and https://github.com/mc2-center/data-models/pull/66
Draft of the MC2 data model dictionary, using GitHub pages deployment, is here:…