search

deeptools / HiCExplorer

HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.
https://hicexplorer.readthedocs.org
GNU General Public License v3.0
233 stars 70 forks source link

Varying bin size in *_tad_score.bm #680

Closed yancychy closed 3 years ago

yancychy commented 3 years ago

Hi, I have confusion on the output of hicFindTADs. From the *_tad_score.bm file, I find that the binsize in each row is varying. The hic resolution is 2kb. Why the bin size in each row are not equal? Thanks.

{"step":8000,"minDepth":6000,"maxDepth":50000,"binsize":2000} chr3 0 7000 0.000000 0.000000 0.000000 0.000000 chr3 7000 49000 18.694121 18.694121 18.694121 10.794996 chr3 49000 88000 6.278219 5.230330 5.171986 5.666241 chr3 88000 93000 3.650062 3.599512 5.119487 5.838324 chr3 93000 98000 4.054495 4.174260 5.369658 4.513936 chr3 98000 100000 3.454103 3.872247 4.966880 3.276863 chr3 100000 102000 0.688500 3.096913 4.392023 2.644304 chr3 102000 105000 2.154638 4.389754 3.831286 2.576375

joachimwolff commented 3 years ago

Please consider my answer in: https://github.com/deeptools/HiCExplorer/issues/679