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Old 09-04-2015, 06:32 AM   #6
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Location: China

Join Date: Feb 2009
Posts: 116

Originally Posted by yifeng View Post
@pengchy: Will this work by changing bt2 to bt2l in source?

I am using tophat 2.1.0, still have problem of using bt2l. Any solutions so far? I am working on a very genome, so have to use bt2l. Can I align each chromosome separately, and then merge the bam files?
Yes, I have tested this on tophat-2.0.13.Linux_x86_64/tophat successfully.
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