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Question: reference genome for Oryza_Sativa
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gravatar for qiushuhao1985
4.0 years ago by
qiushuhao1985 • 10
United States
qiushuhao1985 • 10 wrote:

Since we are working on Rice, can you please provide us with Oryza_Sativa MSU Version7 reference genome in Galaxy to run Tophat. 

Thank you!
assembly tophat rna-seq • 727 views
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modified 3.9 years ago by Jennifer Hillman Jackson ♦ 25k • written 4.0 years ago by qiushuhao1985 • 10
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gravatar for Jennifer Hillman Jackson
3.9 years ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

This genome is already included in the list of new genomes to consider including, but you don't need to wait. Upload the genome in fasta format and use it as a Custom Reference genome. If you add it under "User -> Custom Builds", it can also be assigned as a "database" attribute (required by certain tools).

Instructions are here:
http://wiki.galaxyproject.org/Support#Custom_reference_genome

Thanks! Jen, Galaxy team

 
ADD COMMENT • link written 3.9 years ago by Jennifer Hillman Jackson ♦ 25k
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