Reproducible Bioinformatics with Python

Publisher : O'Reilly Media

ISBN-13 : 9781098100889

Page : 350 pages

Rating : 4.5/5 from 889 voters

Life scientists today urgently need training in bioinformatics skills. Too many bioinformatics programs are poorly written and barely maintained--usually by students and postdoc researchers who've never learned basic programming skills. This practical guide shows how to exploit the best parts of Python for solving problems in biology while also creating documented, tested, reproducible software. Ken Youens-Clark, author of Tiny Python Projects (Manning), demonstrates how to write effective Python code and how to use tests to write and refactor scientific programs. You'll learn the latest Python features and tools--such as linters, formatters, type checkers, and tests--to write documented and tested programs. Create command-line Python programs that document and validate parameters Write tests to verify refactor programs and confirm they're correct Address bioinformatics ideas using Python data structures (strings, lists, and sets) and modules such as Biopython Create reproducible shortcuts and workflows using makefiles Parse essential bioinformatics file formats such as FASTA, FASTQ, and SwissProt Find patterns of text using regular expressions Use higher-order functions in Python like filter() and map()

More Books:

Reproducible Bioinformatics with Python
Language: en
Pages: 350
Authors: Ken Youens-Clark
Categories: Computers
Type: BOOK - Published: 2021-08-17 - Publisher: O'Reilly Media

Life scientists today urgently need training in bioinformatics skills. Too many bioinformatics programs are poorly written and barely maintained--usually by stu
Mastering Python for Bioinformatics
Language: en
Pages: 456
Authors: Ken Youens-Clark
Categories: Computers
Type: BOOK - Published: 2021-05-05 - Publisher: "O'Reilly Media, Inc."

Life scientists today urgently need training in bioinformatics skills. Too many bioinformatics programs are poorly written and barely maintained--usually by stu
Mastering Python Data Visualization
Language: en
Pages: 372
Authors: Kirthi Raman
Categories: Computers
Type: BOOK - Published: 2015-10-27 - Publisher: Packt Publishing Ltd

Generate effective results in a variety of visually appealing charts using the plotting packages in Python About This Book Explore various tools and their stren
Mastering Python for Data Science
Language: en
Pages: 294
Authors: Samir Madhavan
Categories: Computers
Type: BOOK - Published: 2015-08-31 - Publisher: Packt Publishing Ltd

Explore the world of data science through Python and learn how to make sense of data About This Book Master data science methods using Python and its libraries
Mastering Python Scientific Computing
Language: en
Pages: 300
Authors: Hemant Kumar Mehta
Categories: Computers
Type: BOOK - Published: 2015-09-23 - Publisher: Packt Publishing Ltd

A complete guide for Python programmers to master scientific computing using Python APIs and tools About This Book The basics of scientific computing to advance
Command-Line Rust
Language: en
Pages: 398
Authors: Ken Youens-Clark
Categories: Computers
Type: BOOK - Published: 2022-01-13 - Publisher: "O'Reilly Media, Inc."

For several consecutive years, Rust has been voted "most loved programming language" in Stack Overflow's annual developer survey. This open source systems progr
Command-Line Rust
Language: en
Pages: 398
Authors: Ken Youens-Clark
Categories: Computers
Type: BOOK - Published: 2022-01-13 - Publisher: "O'Reilly Media, Inc."

For several consecutive years, Rust has been voted "most loved programming language" in Stack Overflow's annual developer survey. This open source systems progr
Generatives Deep Learning
Language: de
Pages: 310
Authors: David Foster
Categories:
Type: BOOK - Published: 2020 - Publisher:

Generative Modelle haben sich zu einem der spannendsten Themenbereiche der Künstlichen Intelligenz entwickelt: Mit generativem Deep Learning ist es inzwischen
Python for Bioinformatics
Language: en
Pages: 424
Authors: Sebastian Bassi
Categories: Mathematics
Type: BOOK - Published: 2017-08-07 - Publisher: CRC Press

In today's data driven biology, programming knowledge is essential in turning ideas into testable hypothesis. Based on the author’s extensive experience, Pyth
Bioinformatics Programming Using Python
Language: en
Pages: 528
Authors: Mitchell L Model
Categories: Computers
Type: BOOK - Published: 2009-12-08 - Publisher: "O'Reilly Media, Inc."

Powerful, flexible, and easy to use, Python is an ideal language for building software tools and applications for life science research and development. This un