Question

What's the best 3rd party software for doing analysis on 10X Genomics ATAC-seq data?

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5.5 years ago

BioinformaticsLad ▴ 200

I'm aware of Cell Ranger and Loupe from 10X but are there any more flexible 3rd party packages?

atac-seq 10X • 1.3k views

ADD COMMENT • link updated 2.5 years ago by ahmad mousavi ▴ 800 • written 5.5 years ago by BioinformaticsLad ▴ 200

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You could look through bioaRxiv to see if you find something posted as a pre-print. As I recall this specific (sc-ATACseq) application was commercially released late last year and has not been available for that long.

ADD REPLY • link 5.5 years ago by GenoMax 147k

score 1 · Answer 1 · 2022-06-01

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2.5 years ago

ahmad mousavi ▴ 800

Hi

You could try Signac made by Seurat team, it gives lots of option to extract information from scATAC data and really easy to use software.

ADD COMMENT • link 2.5 years ago by ahmad mousavi ▴ 800