Question: Missing genome for SAM-to-BAM conversion
0
gravatar for nicholas.anthony
2.0 years ago by
nicholas.anthony0 wrote:

Hi,

I have a SAM file of aligned RNA-Seq reads that I need to convert to a BAM. Problem is, when I try to use SAM-to-BAM conversion, there aren't any genomes listed in the dropdown, and I'm having trouble finding the mouse mm9 genome in a format that Galaxy understands. I feel like the mouse mm9 genome should already be available on Galaxy. Is there a way to find and upload it so that I can shrink this unwieldy file?

Thanks,

Nick

ADD COMMENTlink modified 2.0 years ago by Jennifer Hillman Jackson25k • written 2.0 years ago by nicholas.anthony0
0
gravatar for Jennifer Hillman Jackson
2.0 years ago by
United States
Jennifer Hillman Jackson25k wrote:

Hello,

Assuming that you are working at http://usegalaxy.org, assign the "database" for the dataset to be "mm9" and the same genome will appear in the drop-down menu on the form. https://wiki.galaxyproject.org/Support#Tool_doesn.27t_recognize_dataset

Thanks! Jen, Galaxy team

ADD COMMENTlink written 2.0 years ago by Jennifer Hillman Jackson25k
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