View Single Post
Old 02-07-2014, 01:43 AM   #2
dpryan
Devon Ryan
 
Location: Freiburg, Germany

Join Date: Jul 2011
Posts: 3,480
Default

You might have to type the full PATH to bowtie2. As an aside, it's going to be a lot of hassle to deal with bioinformatics programs on windows (try to borrow someone's Mac).

Also, unless your organism doesn't have much splicing, you'll probably get better results using tophat2.
dpryan is offline   Reply With Quote