Perl As Programming Language of Choice for Biologists!!

Perl as Programming Language of Choice for Biologists!!


Why Biologists (Bioinformaticians or Bioinformaticists, if the scientific jargon is to be preferred) Prefer Perl?

I am a bioinformaticist, and love Perl over all other computer languages when it comes to programming in biology. This is not only my case, majority of the biologists prefer Perl for their bioinformatics’ tasks. Perl can be given the status of being the mainstay programming language in the field of Bioinformatics or Computational Biology. There must be some reasons why this is the case; actually there are some very strong points that favor the use of Perl in biology over the other lot of available programming languages. But, to be honest, at times, other computer programming languages can be of more benefit than Perl, at least for a specific task. If you are not acquainted with Perl, click here for, what the heck is Perl? In this article, I will explain why it is justified to consider Perl as programming language of choice for biologists, and for the sake of information, I would like to tell that even the non-biologists too prefer it much!

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Branches of Biology Depict Its Essence in Diversities!

Branches of Biology Depict Its Essence in Diversities!!


Rational and Earnest Thoughts from an Earnest Scientific Mind for All the Readers with the Same Mind – Aditya Sardana aka Adidarwinian –


Science is the study of the Facts; Facts mean the Pure Truths.

Biology is a Complete and Pure Science; Biology is the Pure Truth.


Science studies and describes facts and the facts mean all those things that are pure truths. Biology is a complete science, and therefore, it automatically becomes a pure truth.


As I am a hard-core biologist, I will before answering the question “What is Biology”, like to clarify that Biology is in itself a complete scientific platform on which are based a multitude of Applied Biological Sciences such as Biotechnology, Bioinformatics, Bioengineering, Medicine, Physiotherapy, and plenty of others.

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A Biological Marvel Unleashed

A Biological Marvel Unleashed

A Biological Marvel - Photosynthetic Sea Slug - adidarwinian
A Biological Marvel – Photosynthetic Sea Slug

Note the bright green hue in the photograph.

This Sea Slug is a Biological Marvel — It is both an Animal and a Plant!!

“Elysia chlorotica can make energy containing molecules without having to eat anything.”

“This is the first time that multicellular animals have been able to produce chlorophyll“.

Elysia chlorotica is not an ordinary sea slug (a mollusc). Elysia chlorotica is a photosynthetic sea animal. Like plants, it is capable of converting sunlight into energy.

The photosynthetic ability of Elysia chlorotica is the result of incorporation of algal (Vaucheria litorea) chloroplasts (organelles found in plant cells in which photosynthesis occurs) and chlorophyll producing genes into its molluscan cells. Vaucheria litorea belongs to the yellow-green algae of the class  Xanthophyceae.

These slugs initially got the chlorophyll producing genes from the algae that they had eaten. Present generations of slugs have received these genes from their parent generations, and they are passing them to their daughter generations.

Elysia chlorotica gets its chlorophyll-making genes through genetic inheritance, but still is unable to carry out photosynthesis until it consumes adequate quantity of algae so as to receive necessary chloroplasts, which it is unable to produce by itself.

Photosynthetic Sea Slug - Elysia chlorotica - adidarwinian

Bioinformatics and Charles Darwin – Biological Approach of the New Age

Bioinformatics and Charles Darwin – Biological Approach of the New Age (updated 27 December, 2014)

Bioinformatics and Charles Darwin – adidarwinian

Great Great Great – It’s For Mr. Darwin Once Again!!

Continue on the radical path paved by the greatest biologist ever born – Charles Darwin – How can an evolutionary biologist do that?

Bioinformatics, sometimes known as Computational Biology, is presently the best way to study the ever interesting field of evolutionary biology. Bioinformatics provides many unique and powerful tools to study evolutionary biology. One such tool that I would like to mention here is PHYLIP (the PHYLogeny Inference Package).

PHYLIP is a free software package which consists of many simple yet powerful programs for inferring phylogenies. PHYLIP can be easily downloaded through the Internet.


Classification of the Programs in the PHYLIP package   

Programs included in the PHYLIP package can be enlisted by the type of data or by the type of algorithm used.

Based On The Type Of Data – DNA sequences; Protein sequences; Distance matrices; Quantitative characters;  Restriction sites; Discrete characters; Tree plotting, consensus trees, tree distances and tree manipulation; and Gene frequencies

Based On The Type Of Algorithm – Branch-and-bound tree search; Heuristic tree search; Interactive tree manipulation; Converting data, making distances or bootstrap replicates; and Plotting trees, consensus trees, tree distances

Books To Read —

Bioinformatics For Dummies at Amazon.com

Developing Bioinformatics Computer Skills at Amazon.com

Introduction to Bioinformatics at Amazon.com

Practical Computing for Biologists at Amazon.com