Bioinformatics Programming Using Python by Mitchell Model, Model Mitchell, Tisdall James, James

By Mitchell Model, Model Mitchell, Tisdall James, James Tisdall

Robust, versatile, and straightforward to take advantage of, Python is a perfect language for development software program instruments and purposes for all times technological know-how study and improvement. This certain ebook exhibits you the way to software with Python, utilizing code examples taken without delay from bioinformatics. very quickly, you may be utilizing subtle innovations and Python modules which are fairly potent for bioinformatics programming. Bioinformatics Programming utilizing Python is ideal for an individual concerned with bioinformatics -- researchers, help employees, scholars, and software program builders attracted to writing bioinformatics functions. you can find it worthwhile even if you already use Python, write code in one other language, or don't have any programming adventure in any respect. it truly is an exceptional self-instruction software, in addition to a convenient reference whilst dealing with the demanding situations of real-life programming projects. familiarize yourself with Python's basics, together with how one can enhance easy functions find out how to use Python modules for trend matching, dependent textual content processing, on-line info retrieval, and database entry detect generalized styles that conceal a wide percentage of the way Python code is utilized in bioinformatics observe the foundations and methods of object-oriented programming enjoy the "tips and traps" part in each one bankruptcy

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Example 2-1. find(recognition_seq) Each function has a separate namespace associated with it. The function’s parameters go in that namespace. Assignment statements in the function body also create bindings within the function’s namespace. Therefore, a name bound in the interpreter and a name with the same spelling bound in a function definition are in different namespaces and have nothing to do with each other. Example 2-2 illustrates these details. Example 2-2. count('G')) >>> seq = 'AAAT' >>> validate_base_sequence('tattattat') True >>> seq 'AAAT' Line begins the definition of a function called validate_base_sequence that has one parameter, base_sequence.

An individual item of data is called a value. Every value in Python has a type that identifies the kind of value it is. For example, the type of 2 is int. You’ll get more comfortable with the concepts of types and values as you see more examples. The Preface pointed out that Python is a multiparadigm programming language. The terms “type” and “value” come from traditional procedural programming. The equivalent object-oriented terms are class and object. We’ll mostly use the terms “type” and “value” early on, then gradually shift to using “class” and “object” more frequently.

Expressions An operator is a symbol that indicates a calculation using one or more operands. The combination of the operator and its operand(s) is an expression. Numeric Operators A unary operator is one that is followed by a single operand. A binary operator is one that appears between two operands. It isn’t necessary to surround operators with spaces, but it is good style to do so. Incidentally, when used in a numeric expression, False is treated as 0 and True as 1. , nk is written n ** k): >>> 2 ** 10 1024 There are three operators for the division of one integer by another: / produces a float, // (floor division) an integer with the remainder ignored, and % (modulo) the remainder of the floor division.

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