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Question: Microarray Analysis Tools
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gravatar for Leandro Hermida
8.4 years ago by
Leandro Hermida • 80
Leandro Hermida • 80 wrote:
Hello, Are there publicly available tools in Galaxy for microarray data analysis, visualization, etc? Or is this kind of GenePattern's space and you want to stay separate? :) best, Leandro
galaxy • 1.7k views
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modified 8.4 years ago by fubar ♦ 1.1k • written 8.4 years ago by Leandro Hermida • 80
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gravatar for fubar
8.4 years ago by
fubar ♦ 1.1k
Australia
fubar ♦ 1.1k wrote:
I have wrappers for a couple of popular bioconductor packages. Not yet ready for production use, but happy to talk if you're interested? On Wed, Jul 21, 2010 at 7:09 PM, Leandro Hermida
ADD COMMENT • link written 8.4 years ago by fubar ♦ 1.1k
Hi Ross, Thank you for the offer, it's a bit complicated for me. My users are bioinformaticians who are doing a lot of microarray analysis and meta-analysis and they need many of the public tools available that I see on GenePattern GenePattern seems to have many tools and visualizers around microarray analysis, pathway and network inferencing, etc. Galaxy seems to have many tools and visualizers around next-gen sequencing, genomic analysis, and public server integration, etc. I've written quite a few tools for Galaxy for other purposes and love how easy it is to develop against and how flexible it is to your needs. You can really do some elegant stuff and it is accomodating. GenePattern I find to be much more rigid in what you can do and how you have to develop against it. If I could only have the Galaxy development platform with the GenePattern and Galaxy tools! :( -Leandro
ADD REPLY • link written 8.4 years ago by Leandro Hermida • 80
Leandro, that's hopefully on it's way (http://www.genomespace.org/). Cheers, Oliver -- Research Scientist Department of Biostatistics Associate Director Bioinformatics Core Harvard School of Public Health Skype: ohofmann Phone: +1 (617) 365 0984
ADD REPLY • link written 8.4 years ago by Oliver Hofmann • 50
Hi there, I saw this.... I can't wait :) will make life much more "integrated" On Wed, Jul 21, 2010 at 4:29 PM, Oliver Hofmann
ADD REPLY • link written 8.4 years ago by Leandro Hermida • 80
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