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I have non-single cell ATAC-seq data, can I use SnapATAC2 to analyse it?
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Hi,
thanks for this great resource!
It's especially nice that you provide the peaks here given that the raw data is under restricted access and it's quite a pain to get it (I've been waiting for a m…
plger updated
3 weeks ago
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Hello,
I've got a question. I would like to try your software to perform peak calling, but instead of using Chip-seq data I woul like to use it on ATAC-seq data.
Do you think it is possible? If so,…
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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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Dear developers,
I wonder if there is documentation/example for training based on Dnase/ATAC-seq input? I would highly appreciate suggestions on parameter tweaking!!
It seems ATAC/Dnase are supp…
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Hi, I have some unpaired scRNA-seq and scATAC-seq data, they are sequencing the same samples, but in separate scRNA-seq and scATAC-seq assays, so the cell barcodes are different in these datasets. How…
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I am trying to train ChromBPNet on Arabidopsis ATAC-seq data, but run into the error `"Input file shifts inconsistent"` as in #153, #174 and #176. Having read through these other issues, I was able to…
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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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# 1. 可能是 ATAC-seq 方法的原始文献 (nature methods, 2023)
https://www.nature.com/articles/nmeth.2688
Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-bi…
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Hi,
I understand that the default mapping option for the ATAC-seq data is pair ended, but is there a mapping option for a single ended ATAC-seq data?
Thank you,
Lindsay