I finished running dcHiC and identified only one B-to-A compartment switch region (500kb, under 100kb resolution) between wild and mutant type (following screenshot). I also done PCA using HiCExplorer and HOMER (100kb resolution), please note that I have used gene density to decide if the PC1 values of the eigenvector need a sign flip or not. However, this signature identified by dcHiC did not regisister in HiCExplorer and HOMER PCA, as the PC1 values between wild and mutant did not show significant changes. Thus, I want to know if any visually validating can be used to further support this signal. Thank you very much.
Dear @ay-lab
I finished running dcHiC and identified only one B-to-A compartment switch region (500kb, under 100kb resolution) between wild and mutant type (following screenshot). I also done PCA using HiCExplorer and HOMER (100kb resolution), please note that I have used gene density to decide if the PC1 values of the eigenvector need a sign flip or not. However, this signature identified by dcHiC did not regisister in HiCExplorer and HOMER PCA, as the PC1 values between wild and mutant did not show significant changes. Thus, I want to know if any visually validating can be used to further support this signal. Thank you very much.
Sincerely, Zheng zhuqing