merge Fastq or Bam file?
I have three technical replicates from RNA seq data, I like to merge them together. I would like to know is there any difference if I merge them after aligning (after aligning each one separately) as .bam file or I can do that before aligning when I have Fastq file then run alignment?
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Hello star!
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Thanks for reply, but in that question my problem was related to technical and biological replicate, but here is about deference between merging bam and fastq files. I like to know is it impact on downstream results.
Technical replicates have no added value in NGS sequencing. They can be merged at any step and treated as a single sample.