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Old 05-15-2015, 10:36 AM   #1
Location: London

Join Date: Jan 2015
Posts: 10
Default bowtie index file & matching GTF for tophat2, for specific human genome cytoband

Are there examples of bowtie2 ref file (used for indexing with bowtie2-build) and the gtf file that matches that, so I can use them as standard for my mapping?

I am having trouble in creating the bowtie index file that matches the GTF file for a specific cytoband of the human genome..

Also, if you guys have any comments on narrowing down the region of interest I'd appreciate.. (I am currently doing to test my files as it's my first time doing these analyses)
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