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Pejman · 10-08-2010, 02:44 AM

@ ldong Thanks for the nice link!

I managed to get around the problem, by manually adding the SQ headers to the sorted same file! They were dumped out during the SAM->BAM->sort->SAM process

But about TopHAt, I have tried to use it, so far have not been so successful, it gives errors. I'm using SOLiD data.

10-08-2010, 02:44 AM	#8
Pejman Member Location: Switzerland Join Date: Jul 2010 Posts: 23	@ ldong Thanks for the nice link! I managed to get around the problem, by manually adding the SQ headers to the sorted same file! They were dumped out during the SAM->BAM->sort->SAM process But about TopHAt, I have tried to use it, so far have not been so successful, it gives errors. I'm using SOLiD data.