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Old 02-25-2014, 03:35 AM   #2
blanco
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Location: Iceland

Join Date: Apr 2012
Posts: 28
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Hi Federico,
have you confirmed that the data you have is indeed strand specific?
You can use the infer_experiment.py script from the RSeQC package to check it out - https://code.google.com/p/rseqc/

Depending on the library preparation protocol you either use the '-s reverse' or '-s yes' option. Do you know the specifics of the library prep? In any case, you will find out if you manage to run 'infer_experiment.py'.

/blanco
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