Question: (Closed) merge Fastq or Bam file?
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gravatar for star
19 months ago by
star240
Netherlands
star240 wrote:

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?

rna-seq chip-seq alignment • 967 views
ADD COMMENTlink written 19 months ago by star240

Hello star!

Questions similar to yours can already be found at:

We have closed your question to allow us to keep similar content in the same thread.

If you disagree with this please tell us why in a reply below. We'll be happy to talk about it.

Cheers!

PS: You have asked similar questions before. What is wrong with the answers in these?
ADD REPLYlink modified 19 months ago • written 19 months ago by ATpoint36k

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.

ADD REPLYlink written 19 months ago by star240
3

Technical replicates have no added value in NGS sequencing. They can be merged at any step and treated as a single sample.

ADD REPLYlink written 19 months ago by genomax85k
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