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Question: Dockers vs local through VM
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gravatar for ChickenRNA
2.2 years ago by
ChickenRNA • 50
ChickenRNA • 50 wrote:

I am very new to bioinformatics and computer knowledge on linux or command based programming is very limited. I need to perform some RNASeq analysis, and have been trying to get it set up as local instance using VM on windows. I am having issues just getting the reference genomes in there to work with. As I was researching the archives of questions for help I came across the use of dockers on windows. Do you think it would be easier for me to use a docker, for example (https://hub.docker.com/r/bgruening/galaxy-rna-workbench/) for my purpose? Thanks in advance for your time.

dockers rna-seq local • 614 views
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modified 2.2 years ago by Jennifer Hillman Jackson ♦ 25k • written 2.2 years ago by ChickenRNA • 50
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gravatar for Jennifer Hillman Jackson
2.2 years ago by
Jennifer Hillman Jackson ♦ 25k
United States
Jennifer Hillman Jackson ♦ 25k wrote:

Hello,

Update: A simplified Galaxy Docker release at version 16.07 link is included in the Sept Galaxy Update ("News") and might be what you want to use: https://wiki.galaxyproject.org/GalaxyUpdates/2016_09#Releases with a summary blog here https://wiki.galaxyproject.org/News/2016_09GalaxyUpdate

As far as I know, this other docker image would also be a good choice to obtain an instance with much configured and ready to use. It is supported outside of the core team, so if you have problems with it, contact the repo owner directly through an issue against the repository. He'll be interested in knowing if there are problems and can offer specific help/support.

He also checks here and on the developer mailing list - along with others familiar with these docker builds - and may yet post a reply to this question. But I suggest using the galaxy-dev mailing list and/or Github as the next point of contact if problems come up. Please avoid double-posting between the two - one place is enough to reach the developers.

Thanks, Jen, Galaxy team
ADD COMMENT • link modified 2.2 years ago • written 2.2 years ago by Jennifer Hillman Jackson ♦ 25k
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