About the synteny block about phylo-hmrf HOT 3 OPEN

Hi dangdachang @dangdachang,
Thank you very much for your interest in Phylo-HMRF and thank you for the question. I do apologize for my late reply. I used the the original version of inferCARS. The tools to split the net files and chain files into each chromosome are provided by inferCARS. You can find two binary files named splitChain and splitNet after compilation of inferCARS, which can be used to generate net files and chain files for each chromosome.

I also attached the bash script that I used to split the net/chain files with splitChain and splitNet. Please see the attached text file for details. Please see if it can help.
test1.bash

Please let me know if you have any other questions. Many thanks!

Best regards!
Yang Yang

from phylo-hmrf.

Hi Yang Yang @yangymargaret
Thank you so much for your help! The script works well! Now I can get these synteny blocks generated by inferCARS.

from phylo-hmrf.

Hi dangdachang @dangdachang ,
You're welcome. Please let me know if you have any other questions. Many thanks!

Best regards!
Yang Yang

from phylo-hmrf.