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sanger-pathogens / Roary

Rapid large-scale prokaryote pan genome analysis
http://sanger-pathogens.github.io/Roary
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How to calculate Heaps Alpha value from the roary pangenome analysis ? #559

Open dineshkumarsrk opened 2 years ago

dineshkumarsrk commented 2 years ago

I have performed the bacterial pangenome analysis using your pipeline. But, I do not know how to obtain/calculate the Heaps Alpha value from the analysis result, to know the pangenome is open or closed?. Therefore, please help me to do the same.

Many thanks in advance.

neelam19051 commented 2 years ago

Hi, did you get your answer, if you know how to plot heap alpha value please let me know.

dineshkumarsrk commented 2 years ago

Thank you @neelam19051 for your response on my request. I have managed to learn how to calculate the alpha value from the roary pipeline out-put using micropan R package.

neelam19051 commented 2 years ago

Thank you so much for your reply. I going to try micropan for my data as well if i 'll face any error, i will let you know.

Thank you again.