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Learn to develop bioinformatics tools

Hi,

I know how to do NGS Analysis, but now I want to learn to develop new bioinformatics tools. What will be the best starting point?

Thanks

software-development
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updated by Ram Ram • written by rse rse

Can you clarify if "know how to do NGS analysis" only refers to using existing tools?

Do you have programming experience (in some language) or would that be the first requirement as you embark on "learning to develop new tools"?

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written by GenoMax GenoMax

I know perl language, R and linux commands.

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written by rse rse

Adding to all the answers and comments, try to find what is lacking in the existing tools and develop your tools accordingly.

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written by venu venu

5 answers

Choose a language in which you want to code, and come up with a great idea for a tool.

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written by Benn Benn

The most used languages in bioinformatics are R and python but you probably know that already. Here is a comparison of both (a bit outdated but still useful) that can help you choose.

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written by Carlo Yague Carlo Yague

Personally, I prefer to glue stuff together in Bash scripts but I have to admit that Python is often more convenient if premade tools don't exist. For example, reverse_complement() a seq object instead of some combination of rev and tr or whatever..

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written by 5heikki 5heikki

It sounds like rosalind.info may be up your alley: http://rosalind.info/problems/locations/

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written by spvensko spvensko

Go to GitHub before starting.

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written by Naren Naren

I'd start here and do all the exercises, then work out what you want to do from that:

http://pythonforbiologists.com/index.php/introduction-to-python-for-biologists/

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written by Daniel Daniel

Thanks a lot for your valuable inputs.

• 1 views • link
written by rse rse

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