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Forum: Bioinformatics 10-22-2010, 05:14 AM
Replies: 1
Views: 3,193
Posted By ersenkavak
Does Cufflinks support single-end and paired end data together ?

Has anybody tried Cufflinks after merging single-end and paired-end data ?
I am guessing the connectivity between exons will be a lot better this way.
However, the --library-type parameter seems...
Forum: Bioinformatics 10-22-2010, 05:10 AM
Replies: 13
Views: 6,055
Posted By ersenkavak
i ran tophat 1.1.1 with varying lengths between...

i ran tophat 1.1.1 with varying lengths between 20 to 100.
As far as I can tell, it is working just fine.Even though, i have not compared it systematically, it looks much more powerful then dividing...
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