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Some quesetion about Cluster Identity #2253

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superSXB opened this issue Jan 14, 2025 · 1 comment
Open

Some quesetion about Cluster Identity #2253

superSXB opened this issue Jan 14, 2025 · 1 comment
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@superSXB
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Hi,I have some quesetion about Cluster Identity.When using transcriptomic data mapping to identify cell types in scATAC, I have some very confusing cells, This is because I have a large number of samples and a huge number of cells. There is also some overlap between certain cell types. I would like to ask whether I can filter cells based on the mapping scores of predictedGroup_Un. For example, if the score is less than 0.8, I consider that the cell characteristics are not obvious, and I can directly exclude these cells from subsequent analyses.I'd like to ask whether this is reasonable.

@superSXB superSXB added the bug Something isn't working label Jan 14, 2025
@rcorces
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rcorces commented Jan 14, 2025

Hi @superSXB! Thanks for using ArchR! Lately, it has been very challenging for me to keep up with maintenance of this package and all of my other
responsibilities as a PI. I have not been responding to issue posts and I have not been pushing updates to the software. We are actively searching to hire
a computational biologist to continue to develop and maintain ArchR and related tools. If you know someone who might be a good fit, please let us know!
In the meantime, your issue will likely go without a reply. Most issues with ArchR right not relate to compatibility. Try reverting to R 4.1 and Bioconductor 3.15.
Newer versions of Seurat and Matrix also are causing issues. Sorry for not being able to provide active support for this package at this time.

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