I've noticed that many of the papers examining genome-wide ChIP use quantile-normalization. My impression was this was primarily for microarray types of data. It seems like normalization of ChIP-Seq data is quite a bit more complex. To use normalization do you need to sequence the comparable input for each sample you plan to run?
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Researchers using sequencing and genomics tools often have to make trade-offs. They can choose between speed or scale, short reads or long-range information, or targeted panels or a view of the whole transcriptome. New technologies that have been released this year are built to address those tough choices.
We asked six companies the same four questions to learn about their latest products. The new technologies bring a lot to the table, including rethinking sequencing...