morris-lab / CellTagR

This repository contains the CellTag data analysis R package to support clone calling and lineage reconstruction.
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SRA data problem #23

Open AmoriLi opened 1 year ago

AmoriLi commented 1 year ago

HI~ Recently, I came across an issue when downloading the source data to do some deeper analysis about tracing data. The problem is: e.g. SRR7347028 seems only contain one file not common 3 files when "fastq-dump --split-3 SRR7347028.sra" (resulted only SRR7347028.fastq.gz) or "fastq-dump --split-files SRR7347028.sra" (resulted only SRR7347028_1.fastq.gz).

Screenshot 2023-04-27 at 20 55 08

And this sample was described as follows:

Screenshot 2023-04-27 at 20 51 06

Also I had found the Speicific Notice about 3'-end sequencing in your protocol:

Screenshot 2023-04-27 at 20 53 41

Could you please give me some hints about this issue?

AmoriLi commented 1 year ago

I see. What you have deposited is the bam file.