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gbouras13 / pharokka

fast phage annotation program
MIT License
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FR: add a pharokka_plotter.py argument to select the contig to be plotted in case more than one contig in the assembly #305

Closed splaisan closed 7 months ago

splaisan commented 7 months ago

Description

I have a flye phage assembly which is made of a large circular contig and a left-over 10kb fragment which I do not know if it belongs to the bacteriophage or to the bacterial host.

The fragment being contig1, it gets plotted by pharokka_plotter.py by default and I do not get the map of the larger contig

What I Did

I created a separate fasta for each contig and plotted them in two runs

What I would like

either print one map for each contig to a separate picture with a clear title including the contig name or give the user the option to specify which contig should be plotted

thanks in advance

gbouras13 commented 7 months ago

This is a very reasonable and useful request @splaisan - I will integrate it in the next update a make for pharokka along with some other bug fixes that have piled up (maybe in a couple of weeks).

George

splaisan commented 7 months ago

thanks, I guess I can close this for now cheers