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Can Significant Analysis Of Microarray Be Done Via (Bio)Python, Besides R And Excel?

Hello everyone

Is Significant Analysis of Microarray only available on R and excel? I would like to know if there are any options available on python/ biopython or even free software for that purpose on a linux platform.
I don't have Excel and I still have to struggle with R basics.

Thanks

analysis microarray python
• 6,673 views • link
updated by Charles Warden Charles Warden • written by Olivier Olivier

I'd recommend that you persist with R. Yes, it is a steep learning curve, but it offers so much potential that ignoring it is unwise.

• 389 views • link
written by Neilfws Neilfws

You are very right indeed.. I think it was the fear of mixing python and R syntax that made me shy away from persisting with R, because I feel more at ease with python and its nice modular methods. But I'm starting to realise that R might have a slight edge when it comes the length/ readability of code when working with numeric data. Things tend to get longer with numpy, at least for me. Thanks a lot.
I've tried SAM with both R (siggenes) and Tm4(MeV) and got it working (yay!). I've just got to interpret/ fine-tune now.

• 221 views • link
written by Olivier Olivier

2 answers

You can find something useful in http://www.tm4.org/

This is a suite for microarray analysis

Good luck

• 138 views • link
written by venks venks

There is also limmaGUI, which provides a user interface for analsyis:

http://www.bioconductor.org/packages/2.14/bioc/html/limmaGUI.html

I would prefer limma to SAM anyways, so I would recommend trying this

• 121 views • link
written by Charles Warden Charles Warden

Thanks. Got to put that on my to-do list.

• 0 views • link
written by Olivier Olivier

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