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Thanks a lot for providing such a powerful tool for us to analyze Hi-C data, recently I used results obtained from "intra_inter_TAD" to compare the TAD insulation variation between different samples. I wondered whether elements in Hi-C main diagonal were considered when calculating intra-TAD interactions?
Thanks again,
Hao
The text was updated successfully, but these errors were encountered:
Yes the main diagonal would be included in these calculations.
If you want to exclude this, you can load the data with load_contacts(..., z_norm = TRUE).
Yes the main diagonal would be included in these calculations. If you want to exclude this, you can load the data with load_contacts(..., z_norm = TRUE).
Thanks for your reply! Another issue I wondered is the parameter used to evaluate the TAD insulation variation. I have seen various parameters in different papers such as the ration between inter-TAD and intra-TAD interactions, inter-TAD interactions, and insulation score calculated by GENOVA. Which one was more proper?
Sorry, I still have another question related to Figure 4c of your paper published in NAR Genomics and Bioinformatics, how can I draw the concrete numbers indicating the A-A, B-B and A-B interactions? Function "visualise" did not show them.
Hi, developers,
Thanks a lot for providing such a powerful tool for us to analyze Hi-C data, recently I used results obtained from "intra_inter_TAD" to compare the TAD insulation variation between different samples. I wondered whether elements in Hi-C main diagonal were considered when calculating intra-TAD interactions?
Thanks again,
Hao
The text was updated successfully, but these errors were encountered: