Question

Looking For A Public Instance Of Galaxy That Has The "Ngs.Plot" Tool Installed

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11.6 years ago

Honey ▴ 200

I am looking for a version where a public instance is available with NGS plot integrated into it as shown @ http://code.google.com/p/ngsplot/downloads/detail?name=ngs.plot.web.version%201.zip&can=2&q=

Any one has any knowledge I dont have local Galaxy instance.

Thanks

galaxy • 4.4k views

ADD COMMENT • link updated 11.3 years ago by Björn ▴ 670 • written 11.6 years ago by Honey ▴ 200

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Dear Honey, I'm sorry that you are having this trouble. We do have a local instance of ngs.plot at Mt. Sinai but it is really difficult to make it public due to school policy. ngs.plot is more actively being developed as a command line tool. The Galaxy version is kind of outdated. If you don't mind using console, I would suggest you to stick with the command line version. Thank you for your interest in ngs.plot!

Li

ADD REPLY • link 11.4 years ago by shenli.sam ▴ 190

score 2 · Answer 1 · 2013-09-18

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11.3 years ago

Björn ▴ 670

Hi Honey :)

Not ngs.plot but there is a deeptools wrapper in the Galaxy ToolShed. deeptools is similar to ngs.plot and can create bigwig files that are normalized or ratios.

Example plots can be found here: http://f1000.com/posters/browse/summary/1094053

ADD COMMENT • link 11.3 years ago by Björn ▴ 670

score 0 · Answer 2 · 2013-05-23

Not a public instance, but if you set up a BioLinux7 instance (virtual machine or whatever), it now comes with Galaxy pre-configured and ready to go. It's still very much in development but you can add in the tool, if it's not all ready there.

http://nebc.nerc.ac.uk/tools/bio-linux/other-bl-docs/new-in-bl7