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Paper III
PROGRAMMING FOR BIOINFORMATICS
Subject description :
This subject presents the fundamentals of programming techniques, namely sequence of execution, Selection of blocks to be executed, repetition of execution etc with the help of C programming language.
Goals:
To make the students to learn problem solving, execution of programs, thinking the problems in procedure manner and apply the concepts
Objectives:
On successful completion of the course the students should have:
Understood basic of approaching a problem to be computerized
Learnt the various techniques of writing codes to be executed
UNIT-I:
Programming in C
Introduction, Data types, Operators, Expressions, Control Flow, Structures, Input and Output, Functions, Pointers and References, String Processing, File Handling.
UNIT-II
Programming in C++
Basic concepts of OOPS-Introduction to C++,C vs C++-data types, variables, constants, operators and statements in c++- Functions in c++- function prototype-definition-inline functions-overloaded functions.
UNIT- III
Programming in PERL
Introduction, Basic Operators and Control Structures, Scalars, Lists, Hashes, File Manipulation, Pattern Matching and Regular Expressions, Subroutines, Text and String Processing
UNIT-IV
Python Programming
Overview, Data structures, Control Flow, Modules, Basic I/O, Exception Handling,
Regular Expressions, File Manipulation, Classes, Standard library
UNIT-V
BioPERL Programming
General Bioperl classes, Sequences (Bio::Seq Class, Sequence Manipulation), Features and Location Classes (Extracting CDS), Alignments (AlignIO), Analysis (Blast,Genscan), Databases (Database Classes, Accessing a local Database)
REFERENCES:
1. The C Programming Language, B.W.Kernighan and D.M. Ritchie 2nd Edition.
Prientice Hall of India.
2. Programming Perl – Larry Wall, Tom Christiansen & John Orwant 3ed 2000- O’
Reilly
3. Programming Python – Mark Lutz – 2nd Ed., O’ Reilly
4. E. Balagurusamy - “Programming in C++ ” - Tata Mc. Graw Hill Edition
5. Byron Gottfried, - “Programming with C” (Schaum's Outline Series ) - Tata
6. McGrawHill Publishing Company - 1998.
7. Object oriented programming with c++ -Robert Laffore -Waite series.
8. Programming Perl - Tom Christiansen, Larry. Wall Orielly Publications
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