fastq file for GSE151671

Question

[Andy]

Hello everyone,

I am attempting to download the fastq file for GSE151671 from SRA explore. However, this dataset seems a little unusual. For the Native kidney sample, there is only one sample, but there are two fastq files. It is not clear from the filename which one is R1 or R2. I am wondering how to distinguish between R1 and R2 in this case.

Best regards, Andy

Answer 1

[ATpoint]

Looking at https://www.ncbi.nlm.nih.gov/sra/SRX8455360%5Baccn%5D the first of the two listed files has length 26bp so this is R1 most likely, the second one has 100bp length so should be R2, based on expected lengths for 10x Chromium data (seems v2 chemistry). It's single-cell data, are you aware how to process that?

[Andy]

Thank you so much.I just confused about the file name. Normally, in the file name the author indicates which one is R1 or R2. I know how to conduct following analysis. Thanks