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This video shows you the step-by-step process of performing pangenome analysis using the tools Prokka and Roary.
Download the script and materials from here: / roary-pan-genome-75792858
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Materials
________________________________________________________________________________________________
How to install anaconda
Linux • Install , Configure an...
MacOS • Install, Configure and... - GUI Installer
• Install, Configure and... - Command line installer
Roary github page
github.com/san...
python script:github.com/san...
Data for the S.aureus strains can be downloaded from here
www.ncbi.nlm.n... V521 strain
www.ncbi.nlm.n... M48 strain
www.ncbi.nlm.n... P10 strain
www.ncbi.nlm.n... AR465 strain
www.ncbi.nlm.n... NRS1 strain
www.ncbi.nlm.n... R50 strain
Chapters
00:10 Outline
01:33 Explanation and importance of pangenome analysis
03:04 PC Requirement
04:02 Add conda channels
05:19 Create conda environment and install tools
06:36 Activate conda environment
07:15 Set working directory
07:57 Download roary_plot.py python script : github.com/san...
09:40 Install python dependencies
13:44 Download genome sequences
17:31 Perform genome annotation using prokka
24:29 Perform pangenome analysis using roary
33:52 Roary output
34:04 Interpret results
34:09 Gene presence and absence file
36:19 Pangenome matrix
38:17 Pangenome pie chart
#bioinformatics #genomics #bioinformática #microbiology #datascience