Comments (2)
Hello,
thank you for using AGORA and Genomicus.
At the present time, we do not provide tool to generate such global view with command line.
However, you can use src/misc.compareGenomes.py to generate the karyotypes one by one (with the option mode=drawKaryotype).
The first ancestral karyotype (one color per ancestral block) can be generate by comparing the genome to itself, eg:
src/misc.compareGenomes.py ancGenome.A1.list.bz2 ancGenome.A1.list.bz2 ancGenes.A1.list.bz2 -mode=drawKaryotype > A1.ps
The others, by comparing the genome (ancestral or modern) with the first ancestral one:
src/misc.compareGenomes.py genome.M1.list.bz2 ancGenome.A1.list.bz2 ancGenes.A1.list.bz2 -mode=drawKaryotype > M1.ps
etc...
options are available (+sortBySize, -minChrSize etc...)
I hope this allows you to do what you want on your data,
Best wishes,
Alexandra
from agora.
from agora.
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