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APSEducationContinuing EducationWorkshopsBasic bioinformatics and command-line tools for phytopathologists

​​​Basic Biofinformatics and Command-Line Tools for Phytopathologists: How to Handle, Explore and Organize Big Biological Data​

​​Broadcast Date: October 18, 2022​​ | 10:00 AM - 3​:00 PM Central


Workshop​ Summary

High-throughput sequencing technologies have significantly improved the generation of large data sets of omics information (genomes, transcriptomes, proteomics, and microbiomes). Administration and analysis of big data in the omics erara to understand complex biological systems present a new challenge for plant pathologists. Analysis of big and complex data sets requires the use of computational tools that interact with databases and computer servers. The command line interface allows users to interact with computers both locally and in server to conduct computationally intensive analyses. In this workshop, we will explore different usages of command line interfaces for bioinformatic analyses. We will introduce the cluster computing system, Linux shell, and shell scripting. We will use unix commands to parse sequence and text files followed by the application of local BLAST and data parsing.

Plant pathologists interested to apply computational tools for analyzing high-throughput sequencing data using cluster computers. Participants are expected to have some idea about genomic data, sequencing platforms, and general terminologies commonly used in bioinformatics such as assembly, annotation, sequencing platforms, fastq, fasta, etc. No technical proficiency is expected. 
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Learning Objectives

​The participants will learn command line tools for bioinformatics analyses and use of cluster computing that commonly used in microbial genomics studies.​


On-Demand Workshop

 
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Healthy Plants • Healthy World
The American Phytopathological Society (APS)
3285 Northwood Circle
Ste. 100
St. Paul, MN 55121 USA
Phone +1.651.454.7250
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