Change labels and re-plot

JustinChu / JupiterPlot

A Circos-based tool to visualize genome assembly consistency or synteny between assemblies.

GNU General Public License v3.0

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Closed gbdias closed 5 years ago

gbdias commented 5 years ago

Hi,

I would like to change my reference labels and regenerate the plot. Is it possible to run only the plotting step again after the analysis is completed?
If so, should I just edit the prefix.seqOrder.txt file or something else?

Thanks

JustinChu commented 5 years ago

Hi sorry for the late reply,

You can rerun the pipeline from to the prefix.karyotype stage and edit the file and run the whole pipeline again:

jupiter name=prefix $OPTS prefix.karyotype
sed -i 's/chromosome/chr/g' prefix.karyotype
jupiter name=prefix $OPTS

In this example maybe the labels were chromosome1 and I changed them to chr1. You can also just use a text editor if you want.

Is that what you meant?

gbdias commented 5 years ago

Yes, that does the trick. Thanks for the info!