Question: Reference transcriptomes for kallisto in Galaxy
gravatar for Ray_Enke
4 months ago by
USA/Harrisonburg, VA/James Madison University
Ray_Enke0 wrote:


I'm interested in using the Kallisto quant and psudo tools in Galaxy to analyze human, mouse, and chicken RNA-seq data sets. There are however, no reference transcriptomes to choose from at the moment. Is there an ETA on having some stock built in refs to choose from? I'm most interested in human hg38, mouse mm10, and chicken galGal5.


kallisto galaxy rna-seq • 246 views
ADD COMMENTlink modified 4 months ago by Jennifer Hillman Jackson25k • written 4 months ago by Ray_Enke0
gravatar for Jennifer Hillman Jackson
4 months ago by
United States
Jennifer Hillman Jackson25k wrote:


As far as I know, there are no current plans to natively index transcriptomes for these tools. Instead, upload your own and use it from the history.

Related tickets for this tool:

You could make a request to have this data added (if possible) at the IUC tool developer's repository. Additions are unlikely to be immediate, as there are some data federation tasks in progress across the usegalaxy* servers that need to be sorted out first.

Thanks! Jen, Galaxy team

ADD COMMENTlink modified 4 months ago • written 4 months ago by Jennifer Hillman Jackson25k
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