Command-line Series Introductory Linux for Bioinformatics

Linux/Unix operating systems are always the first choice of Bioinformaticians to handle and analyze huge biological datasets in a much easier and more efficient manner. Linux allows you to develop and utilize command-line tools for easier and more efficient data analysis of biological nature utilizing the command-line interface of Linux/Unix operating systems. Moreover, Linux makes automated biological analysis easy by providing the ability to create various pipelines so that you don’t have to write the code again and again.

BioCode is offering Introductory Linux Scripting for Bioinformatics course so that you can learn intermediate biological programming on a Linux terminal to efficiently retrieve, manipulate and analyze bioinformatics genomic datasets. Along with this, you’ll learn how to get started with Linux, how to process and pre-process biological data to manipulate and analyze large genomic files and create pipelines to process the datasets.

This course is for absolute beginners in bioinformatics scripting and you don’t require any prior knowledge of Linux or even bioinformatics to get started with this course. In Bioinformatics, the researchers have to work through a huge set of textual data in the form of CSV files, genomic data, tabular data, etc. Such data analysis can be quickly and easily done using the command line or terminal interface of Linux or Unix operating systems. Moreover, it takes a few minutes to complete a task on a Linux OS that you cannot even think of performing on Windows or any other operating system.

This course will include the following sections:

Section 1: Linux

Description: This section will focus on making sure that the students gain an understanding of the Linux operating system and the different functions and commands that can be performed on biological data using Linux.

Learning Outcomes:  Upon completion of this section, students will be able to:

1. Discuss Linux Operating System.
2. Print Working Directory in Linux.
3. Change Directories in Linux.
4. Make Directories in Linux.
5. Move Files, Directories, and Data.
6. Find the Installed Programs in Linux.
7. Delete Files and Directories in Linux.
8. Find the Files Created by the User.
9. List Files and Directories on Linux.
10. Pipe and Redirect Data.
11. Visualize and Inspect Text Data.
12. Read the Specified Number of Lines from the Bottom
13. Modify File Statistics and Create Files.
14. See the Statistics of Files & Directories.
15. Retrieve Genome Assemblies.
16. Retrieve Bioinformatics Files.
17. Create and Edit Text Files.
18. Find Sequence Differences in Files.
19. Compress and Archive Files Efficiently.
20. Extract Compressed Content.
21. Create Archives of Genome Data.
22. Find Uncharacterized Proteins in the Human Genome.
23. Sort Data.
24. Find Unique Data Items.
25. See the Statistics of Data Within the File.
26. Copy Files and File Contents.
27. Properly Visualize Delimited Datasets.