Chapter 11 HiC Insulation Diamond Preprocess

11.1 description

calculate insulation score and identify boundaries in mouse activated splenic B cells (24h), hepatocyte and WTDM myocyte in 50kb resolution, 800kb and 1Mb windsize

11.2 input data

• GSE98119_Vian-2018-activated_B_cells_24_hours_WT.hic.50kb.cool
• GSE93431_UNTR.50kb.cool.HDF5
• WT_DM.allValidPairs.res50kb.cool

11.3 processing

• calculate insulation diamond

cooltools diamond-insulation GSE98119_Vian-2018-activated_B_cells_24_hours_WT.hic.50kb.cool 800000 1000000

• filter boundaries by boundary strength

11.4 output:

• data/HiC/*diamond-insulation.800kb.1000kb.txt