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2.2 years ago
Nobody
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30
Hi!
I have raw public data from the SRA database (fastq format), I would like to evaluate the batch effect and normalize my data. Is it possible to normalize them ? how ?. what are the programs in R that will allow me to make a correction of the batch effect. Finally, I would like to know the pre-processing to be done before proceeding to the alignment and the assembly of my data.
I appreciate all suggestions.
Thank you
We don't know what your data is or what the goal of your analysis is. You should expand on your project and hypothesis otherwise it would be difficult for us to help.
What RNASeq tutorial are you following? You are about 5 steps away from being able to assess batch effect. If your hope is to compare samples from two totally different labs, that's likely to be impossible.