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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 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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Hi,
I am running the tutorial.
I have been stuck on the function runGenePeakcorr for several days.
This is the output.
--------------------------------------------------------------------
Const…
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When I run mv.aggregate_peaks_10x with both the demo and my own data, I get this error: 'SparseCSCView' object has no attribute 'A'
How can I get around this?
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Hi,
I've established a link to the FTS API interface and I can insert (POST) entities and then use ManageGeoObject/getGeoObject to retrieve them from the server. Also, when I add them using the API I…
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Hello,
I have also been researching the GSE139136 scATAC-seq data recently. However, after downloading the files from SRA and running fastq-dump, I only obtained the paired-end sequencing files SRR…
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#11
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Hi,
I am trying the graph_peak_caller in ATAC-seq mode as you suggested in #8 . I am following the pipeline in vg to construct the variation graph. I worked on the mouse genome, in which case 21 gra…
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Dear muon-team,
I have converted my scATAC-seq SeuratObject to a mudata object but the information on the fragments files does not seem to be transferred. mdata.uns is empty.
My object is a merge…
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This paper looks really nice: https://doi.org/10.1093/nar/gkad1225
Has ChIP-seq, ATAC-seq, RNA-seq, enough replicates, two groups (for differential binding).
SRA: https://www.ncbi.nlm.nih.gov/b…