Question: Galaxy Local Install Problems Understanding Where To Put Mouse Ref Seq Data To Populate Ref Genome In Bwa
gravatar for Christopher Callaway
7.1 years ago by
Christopher Callaway40 wrote:
Hello, I am still having problems understanding how to install mm9 mouse ref genome into our own install of Galaxy. When I try to map with BWA for Illumina the drop down for select ref genome is not populated with anything. How do you grab the mm9 ref file and how do you convert it so that Galaxy local "sees" it? How do you build the index and how do you prepare the loc file? Our install does not contain a folder tool- data/shared/ucsc/builds.txt. Sorry but I am not a programmer, just a bench scientist. Thanks in advance, Christopher W. Callaway University of Utah Dept. of Pediatrics Division of Neonatology 417 Wakara Way #2222 Salt Lake City, UT 84108
bwa alignment • 939 views
ADD COMMENTlink modified 7.1 years ago by Jennifer Hillman Jackson25k • written 7.1 years ago by Christopher Callaway40
gravatar for Jennifer Hillman Jackson
7.1 years ago by
United States
Jennifer Hillman Jackson25k wrote:
Hello Christopher, This wiki explains the exact steps for how to set up reference genomes for NGS tools, including BWA: Please let us know if you have any questions. For local instance questions, searching prior answers (Nabble) or posting to is recommended. Take care, Jen Galaxy team -- Jennifer Jackson
ADD COMMENTlink written 7.1 years ago by Jennifer Hillman Jackson25k
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