Question: Issue with stitch MAF block tool in galaxy
0
gravatar for kkarri
4 months ago by
kkarri0
kkarri0 wrote:

Hi , I am trying to use the stitch MAF block tool with my bed file for rat genome (rn6) but it asked me for the MAF source and type. I went into the edit dataset and set my database to rn6 but it doesn't seem to help. How can I make it work ?

alignment galaxy • 182 views
ADD COMMENTlink modified 4 months ago by Jennifer Hillman Jackson23k • written 4 months ago by kkarri0
0
gravatar for Jennifer Hillman Jackson
4 months ago by
United States
Jennifer Hillman Jackson23k wrote:

Hello,

Both the input interval dataset and the input MAF dataset (from your history, it is not natively indexed) should have the database and datatype set (one is interval, the other maf).

MAF datasets for rn6 are available from UCSC. Load the data from the downloads area (under "Conservation" per genome) via URL - these are too large to load from the UCSC Table Browser. Just be aware that these are large files - so you may need to make room on your account to load/use them (free of space by permanently deleting unneeded datasets - you can always download these first to keep a copy).

Thanks, Jen, Galaxy team

ADD COMMENTlink modified 4 months ago • written 4 months ago by Jennifer Hillman Jackson23k
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