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l-magnificence / scATAC-pipline

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Inquiry Regarding Issues with GSE139136 scATAC-seq Data #1

Open bosibocai opened 2 months ago

bosibocai commented 2 months ago

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 SRR10315835_1.fastq.gz and SRR10315835_2.fastq.gz. However, for cellranger-atac count, R1, R2, and R3 FASTQ files are all mandatory for the analysis. Could you let me know where I might have gone wrong or how you resolved this issue? I would greatly appreciate it.

l-magnificence commented 2 months ago

It lacks R3 files. I don't have that data either.