NCBI Tools in Linux
how to run several NCBI tools in the Linux environment
Updated on Sep, 2023
Language - English
Bioinformatics has become an entirely independent discipline. This branch of science can greatly speed up and facilitate biological and biomedical research. As a biology or medical student or researcher you might be using bioinformatics tools at NCBI. You might also be interested in learning how to use these programs in Linux to make your work more efficient by automating them. This course helps you do exactly this.
In this course we will learn how to use the Linux version of several NCBI tools, such as ClustalW, bl2seq, analyzing GEO data sets, primer design by primer3, or downloading sequences using a Biopython script. We will also learn how to format BLAST databases and run Blast queries against them. We will also learn about the SRA database and how to download SRA NextGen fastq data sets.
In order to take this course some knowledge of Linux is required. For example we will write a shell script and a python script in one of the videos. You also have to know how to navigate in a Linux environment and run commands, but it should not be too difficult.
I hope that the knowledge that you gain in this course will help you become a more effective researcher.
Who this course is for:
- biology and bioinformatics students
What will you learn in this course:
NCBI blast tools
What are the prerequisites for this course?
basic knowledge of Linux programming and molecular biology
Check out the detailed breakdown of what’s inside the course
- Introduction to the course 03:19 03:19
Primer design with primer3
Matthew Cserhatibioinformatics; sequence analysis; Next Generation Sequencing
PhD in bioinformatics and BSc in software development from the University of Szeged. 20 years programming experience, 10 years experience in Nextgen sequencing. Associate level certification in Python at the Python Institute. Knowledge of Linux, R, MySQL, C, PHP, Perl.
User your certification to make a career change or to advance in your current career. Salaries are among the highest in the world.
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