Questions about seurat integration in your figure 1 i

swaruplab / Single-nuclei-epigenomic-and-transcriptomic-landscape-in-Alzheimer-disease

Single-nuclei RNA-seq and ATAC-seq in Alzheimer's disease

https://swaruplab.bio.uci.edu/singlenucleiAD

MIT License

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Questions about seurat integration in your figure 1 i #6

Open HelloWorldLTY opened 1 year ago

HelloWorldLTY commented 1 year ago

Hi, I tried to reproduce the figure1 i in your research using the public data in the GEO platform. However, since I did not have fragements information, I cannot calculate the gene activity score matrix based on your public data. Are there any data I can access related to fragements information? Thanks a lot.

smorabit commented 1 year ago

You can generate the fragments file by running cellranger-atac on the snATAC-seq .fastq files.