Dear Forum,
being relatively new to NGS data analysis i have a newbie question: I got paired end solexa data and want to assemble it. To do so using assemblers like e.g. abyss, i need to specify the read orientations. I was assuming that this would be forward for the first reads and reverse for the second reads - i am not sure, though and googling did not really yield an answer. Do paired end reads always have the same orientations or is this depending on the individual experiment?
Thanks in advance!
being relatively new to NGS data analysis i have a newbie question: I got paired end solexa data and want to assemble it. To do so using assemblers like e.g. abyss, i need to specify the read orientations. I was assuming that this would be forward for the first reads and reverse for the second reads - i am not sure, though and googling did not really yield an answer. Do paired end reads always have the same orientations or is this depending on the individual experiment?
Thanks in advance!
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