About SVAnnotation

SunhyeSunhye KoreaMember
edited October 2015 in GenomeSTRiP

Hi. I call structure variation and CNV using GenomeSTRiP2.0 , and I plan to apply annotation to my sv result.
I want to use "-A GeneOverlap" but I can't find related files such as "ucsc_gene_descriptions.dat" , " gencode.v17.annotation.sorted.gtf ".
Also SortGTFFile is not connected.

How can I find these files?
How to sort gencode.v17.annotation.gtf ?
Example )
In shell

$ sort   gencode.v17.annotation.gtf > gencode.v17.annotation.sorted.gtf 

Is this sort method right?

Best Answers


Sign In or Register to comment.