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Old 11-01-2012, 10:17 AM   #1
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Location: dublin

Join Date: Mar 2009
Posts: 5
Default bias in merging sequence data?


Could anyone offer any advice as to whether it would create bias downstream in RNA seq DE analysis to combine reads from 2 different sequencing runs carried out on the same library for the same sample that are of varying sizes..e.g. one containing 3 million reads and one containing 30 million?
In the past I've combined fastq files of similar sizes(e.g.each containing ~20 million reads) before aligning but in this case I was wondering if things might be a bit off ...

thanks for any help!

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