How to analysed RNA Seq for multiple samples

Question

[Nikesh]

I have RNA sequence data for six Zingiberaceae families. ( four from Zingiber officinale and two from kaempferia parviflora ). These samples are sequenced without any biological replicates and collected from different places.

My objectives are

1. To identify any differently expressed genes by comparing these samples.
2. Analyse gene function and pathway.
3. To identify key regulators/ genes involved in the biosynthesis of metabolites

Kindly suggest an approach to do this. Thanks

[Mark]

biological replicates and collected from different places.

Biological or technical replicates? It sounds like you mean technical replicates, you have biological replicates. Read the edgeR manual, it will explain how to analyse your data.