NCBI Tools in Linux
how to run several NCBI tools in the Linux environment
Linux,Development,Programming Languages
Lectures -15
Duration -1.5 hours
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Course Description
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.
Have fun!
Who this course is for:
- biology and bioinformatics students
Goals
NGS
NCBI blast tools
Clustalw
SRA tools
some Biopython
primer3
GeoR
Prerequisites
basic knowledge of Linux programming and molecular biology
![NCBI Tools in Linux NCBI Tools in Linux](https://d3mxt5v3yxgcsr.cloudfront.net/courses/7480/course_7480_image.png)
Curriculum
Check out the detailed breakdown of what’s inside the course
Introduction
1 Lectures
-
Introduction to the course 03:19 03:19
BioPython
3 Lectures
![Tutorialspoint](/market/public/assets/images/loader.gif)
Alignments
4 Lectures
![Tutorialspoint](/market/public/assets/images/loader.gif)
BLAST
3 Lectures
![Tutorialspoint](/market/public/assets/images/loader.gif)
SRA tools
2 Lectures
![Tutorialspoint](/market/public/assets/images/loader.gif)
Primer design with primer3
2 Lectures
![Tutorialspoint](/market/public/assets/images/loader.gif)
Instructor Details
![Matthew Cserhati](https://www.tutorialspoint.com/assets/profiles/446668/profile/200_1511074-1649120128.jpg)
Matthew Cserhati
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