comparative genomics of eukaryotes

Question

[oussriradnane]

hi how can I do a genome comparative analysis of eukaryotic microorganisms. protocol, software .... can I compare chromosome by chromosome or all of the chromosomes at once

[WouterDeCoster]

Question unclear, please elaborate. Specify which data you have and what exactly you aim to achieve. Make sure your question is not too broad, be as specific as possible.

[oussriradnane]

I want to do a genome comparative study of a fungus, but the species have a different number of chromosomes, so how can I do

[GenoMax]

I assume you have sequence data for these chromosomes? You could start by using an aligner like LASTZ that can try to align chromosome sized sequences (http://www.bx.psu.edu/~rsharris/lastz/README.lastz-1.04.00.html ).

[oussriradnane]

thank you