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schneebergerlab / msyd

MIT License
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Feature request: print table of pansyn regions when running pansyri from command line #7

Closed mnshgl0110 closed 3 months ago

mnshgl0110 commented 1 year ago

I think it would be nicer if pansyri could print the pansynetic regions. I guess the output could be in the following format:

$pansyri -i genomes.tsv --sp --syn
pansyn_region_1 Genome1:Chr1:start-end   Genome2:Chr1:start-end  Genome3:Chr1:start-end
pansyn_region_2 Genome1:Chr2:start-end   Genome2:Chr2:start-end  Genome3:Chr2:start-end

In the end we would need to fit the output in the VCF but for now something like this would be more useful than outputting pansyn object that are not readable from the command line.

lrauschning commented 3 months ago

Closing this, as -p will do this.