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Published 20 hours ago • verified publisher icon sanger-pathogens

How to calculate Heaps Alpha value from the roary pangenome analysis ?

Open dineshkumarsrk opened this issue 2 years ago • 3 comments

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.

dineshkumarsrk avatar Mar 14 '22 11:03 dineshkumarsrk

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

neelam19051 avatar Apr 26 '22 07:04 neelam19051

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.

dineshkumarsrk avatar Apr 26 '22 12:04 dineshkumarsrk

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.

neelam19051 avatar Apr 28 '22 04:04 neelam19051