[BiO BB] How to write Algorithm

Indraneel Majumdar indraneel at indialine.org
Wed Sep 26 10:03:37 EDT 2001

On Wed, Sep 26, 2001 at 08:35:30AM -0400, John S. J. Anderson wrote:
> Indraneel Majumdar <indraneel at indialine.org> writes:
> > There is a very nice O'reilly book: Developing Bioinformatics
> > Computer Skills
> I wouldn't really recommend this for reading about algorithms -- there
> wasn't really any in-depth stuff in this book IIRC. (The book is still
> good for what it is -- it's just not a book about bioinfo algorithms.)

yes, you're right. It's a good book, but not specially about algorithms

> If you're a Perl programmer, especially a Perl programmer of the "I
> used to be a biologist but now I do Perl even though I never had a
> programming class in my life" variety, you should read chapters two
> and three of the ORA _Mastering Algorithms with Perl_ book, which
> discuss the implementation of some of the classic data structures
> (heaps, B trees, stack/queues/deques, etc.) in Perl. You will learn a
> staggering amount.

Thanks for this great piece of information. I am a bioprogrammer of the
variety you described (which couldn't have been put better ;-)
"Mastering Algorithms with C" does have some of the heaps, trees, queues
etc. I'll get the perl book too to see how it's easier.

Thanks a lot,

> -- 
> Unix is like a toll road on which you have to stop every 50 feet to
> pay another nickel.  But hey!  You only feel 5 cents poorer each time.
>              -- Larry Wall in <1992Aug13.192357.15731 at netlabs.com>
Didn't Linux appear a year before that?


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