Viral Genome Assembly and Annotation

Описание: Viral Genome Assembly, Annotation and Visualization

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Materials
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Download the Ebook for this tutorial:   / 82549645  

Original tutorial:https://compeau.cbd.cmu.edu/online-ed...

How to Install Mamba:    • Install , Configure  and Run Mamba & Conda...  

Tools used in this tutorial
spades:https://github.com/ablab/spades
sratools:https://github.com/ncbi/sra-tools
prokka:https://github.com/tseemann/prokka
bandage:https://rrwick.github.io/Bandage/
jbrowse:https://jbrowse.org/jb2/




Genome Visualization Tutorials:   • Genome Visualization Tutorials  

Genome Assembly Tutorials :    • Genome Assembly Tutorials  

Genome Annotation Tutorials:    • Genome Annotation Tutorials  

SRAToolkit Tutorials
How to download fastq files:   • DOWNLOADING Sequence Data Reads  from SRA ...  
How to download fasta files:   • How to DOWNLOAD FASTA Sequencing data from...  



Chapters
01:18 Install tools
03:52 Create a working directory and cd into it
04:03 Download the example data
06:24 Download data using sra toolkit
07:16 Put the files into another directory
07:50 Genome assembly with spades
12:50 Spades output extract
15:25 Genome assembly visualization with bandage extract
21:52 Genome annotation with prokka
36:26 Visualize genome annotation using jbrowse

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