search

glennhickey / progressiveCactus

Distribution package for the Prgressive Cactus multiple genome aligner. Dependencies are linked as submodules
Other
80 stars 26 forks source link

how to visualise the results #64

Open mjfi2sb3 opened 8 years ago

mjfi2sb3 commented 8 years ago

Hi,

I have run progressiveCactus on nine plant genomes. I have a large HAL file but I am not sure how to visualise it.

Can someone, in a nutshell, also explain to me what kind of analysis that can done on this HAL file.

Many thanks in advance

robsyme commented 7 years ago

One option would be to use hal2assemblyHub.py tool is provided in the HAL toolkit. Manual here: github.com/ComparativeGenomicsToolkit/hal/assemblyHub and more step-by-step instructions here: bioinf.uni-greifswald.de/augustus/binaries/tutorial-cgp/cactus.html