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How to generate count matrix in Episcanpy #110

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taopeng1100 opened this issue Nov 18, 2021 · 0 comments
Open

How to generate count matrix in Episcanpy #110

taopeng1100 opened this issue Nov 18, 2021 · 0 comments

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@taopeng1100
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Hi I am asking advice on how to upload the data into Episcanpy. I have access to the following four types of data for each ATAC sample:
atac-assembly-filtered-fragments-tsv-gz
atac-assembly-read-counts-gene-bodies-h5
atac-assembly-read-counts-per-windows-h5
atac-assembly-read-counts-per-region-h5

Which on should I use for generating count matrix? What other data do I need to upload before the actual analysis?

Thanks,
Tao

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