How to Convert SRA to WIG format?

[Fernas]

I have methylation files in SRA format and I want to convert them to WIG and/or to bed file formats? Is there tool(s) that can do that?

[dpryan]

It's likely that the SRA file just contains unaligned reads, so you'll need to dump them to fastq (fastq-dump from the SRA toolkit), align those, and then make a WIG file of whatever you're interested in looking at.

[Fernas]

Thanks @dpryan.