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Bioinformatics Data Skills: Reproducible and Robust Research by Vince Buffalo

By Vince Buffalo

This functional e-book teaches the talents that scientists want for turning huge sequencing datasets into reproducible and powerful organic findings. Many biologists commence their bioinformatics education through studying scripting languages like Python and R along the Unix command line. yet there's a massive hole among understanding a couple of programming languages and being ready to investigate quite a lot of organic data.
Rather than educate bioinformatics as a collection of workflows which are prone to switch with this quickly evolving box, this publication demsonstrates the perform of bioinformatics via info talents. Rigorous evaluate of knowledge caliber and of the effectiveness of instruments is the basis of reproducible and strong bioinformatics research. via open resource and freely to be had instruments, you'll study not just the way to do bioinformatics, yet find out how to method difficulties as a bioinformatician.
Go from dealing with small issues of messy scripts to tackling huge issues of smart equipment and tools
Focus on high-throughput (or "next generation") sequencing data
Learn information research with glossy tools, as opposed to masking older theoretical concepts
Understand the best way to select and enforce the easiest device for the job
Delve into equipment that result in more uncomplicated, extra reproducible, and powerful bioinformatics research

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Additional info for Bioinformatics Data Skills: Reproducible and Robust Research with Open Source Tools (1st Edition)

Sample text

In this case, you’ve asked it only to read the text you wrote, but doing this doesn’t constitute a change to the environment. However, you can see that Python indicated that it saw what you entered. It showed you the text you entered, and it displayed it in the manner it will always display a string — in quotes. As you learn about other data types, you’ll find that Python has a way of displaying each one differently. What is a String? A string is one of several data types that exist within the Python language.

The print() function allows you to print text to the user’s screen. It follows the syntax: print(“Here is some text”). Exercises 1. ” Feel free to experiment with the number of \n and \t escape sequences to see how this affects what gets displayed on your screen. You can even try changing their placement. What do you think you are likely to see? 2. 14 In the Python shell, use the same string indicated in Exercise 1, but this time, display it using the print() function. Once more, try differing the number of \n and \t escape sequences.

For starters, type in some text: >>>”Hello World. ” Note that typing the previous sentence into the shell didn’t actually do anything; nothing was changed in the Python environment. Instead, the sentence was evaluated by Python, to determine what, if anything, you wanted Python to do. In this case, you merely wanted it to read the text. Although Python didn’t technically do anything with your words, it did give some indication that it read them. Python indicated this by displaying the text you entered (known as a string) in quotes.

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