Question: update drosophila genome to dm6
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huaqi.jiang • 10 wrote:
The Drosophila genome has been updated to dm6. However, the Galaxy still only use dm3. Many gene annotations has been changed which caused a lot of headaches for figuring out the genes associated with particular ChIP-Seq peaks. Can someone update that in the Galaxy? I know how to map that ChIP-Seq data with custom genome, but all the tools such as bedgraph/bigwig still require a reference genome. Thanks.
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modified 3.3 years ago
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Jennifer Hillman Jackson ♦ 25k
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3.3 years ago by
huaqi.jiang • 10
HI
I have a fast file of dm6 which is correctly formatted to be used as a reference taken from the current history by most tools. This might be useful in this manner if you are not an administrator of your galaxy instance.
If you are an administrator you can make available to tools from the drop down menus.
You can get the dataset 'dm6_iso_all' from the following shared history
https://usegalaxy.org/u/guy1/h/share-dm6-ref
The other two datasets are the files from which this ref file was created (so you can check things yourself). the workflow used was this one.
https://usegalaxy.org/u/guy1/w/workflow-constructed-from-history-keep-important
If you are going to use this file you will want to be sure that it is correct !! Thanks Guy