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2.1 years ago
sanangelma
•
0
I have two questions about the RNA-se analysis using HISAT2. I did pair-end sequencing and I was given two files for each of my samples. I concatenated my datasets (end to tail) to merge the 2 datasets corresponding to each sample into one. I was wondering if this correct? Also, I am planning to do the alignment using HISAT2. However, I'm unsure about the type of library I should select for this. Would concatenated files considered single ended? there is another option called paired-end from single interleave dataset, which I initially thought would be my case, but I'm not completely sure. Any comments and suggestions are highly appreciated. Thanks.
My main concern is: do you know how sequencing works and what "single-end" and "paired-end" mean? If not, I would recommend going through that first before doing any sort of data analysis.