hicCompareMatrices between 2 cool format files

[BenxiaHu]

Hello,
I have 2 cool format files generated by balancing algorithm (hicpro2higlass.sh). I convert them to h5 format, and use hicCompareMatrices to calculate the differences between 2 matrices with h5 format.

Do you think I can directly convet the 2 cool format files generated by balancing algorithm to h5 format, and analyze the difference between 2 matrices?

Best,

[joachimwolff]

Hi,

you can directly use any cool file with HiCExplorer without any change to h5.

Best,

Joachim

[BenxiaHu]

thanks.
but hicCompareMatrices requires the .h5 format, not cool format, right?

[joachimwolff]

No, HiCExplorer supports cool and h5 for all its tools.