DNA sequences manipulation with TraMiner
Hi dears all. I have a data set including fish DNA sequences obtained from Sanger sequencing for several stations in one river. I have aligned them in Mega and now they have similar lengths. Now want to calculate Entropy, Turbulence and Transition for them with TraMiner package in R , If anyone has used similar files may you please help me with some advice or a sample code. Thank you in advance.
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Sounds like you’ve already done part of the hard work, what exactly are you struggling with?
Actually I think first I need to convert these seq data to numeric data and then take the desirable objects like Entropy between fish belonged to different stations in each river, but the point is till now I couldn't understand how can I do it.