Figure 5.

Bias removal on capture Hi-C data. (A) Performance on the Capture Hi-C data. Two replicates centered on a 6 Mb domain on chromosome 6 in T47D cells were normalized by the indicated tools and their reproducibility score was computed. (B) Performance on virtual Capture Hi-C data. Two Hi-C experiments were post-processed to produce an output similar to the Capture Hi-C experiment depicted in panel A. The signal outside the domain on chromosome 6 was removed and the data were normalized (capt), or the data were normalized before removing the signal outside the domain on chromosome 6 (full). Four matrices per method were generated and the reproducibility score between the pairs from different replicates were computed. Note that the scores are identical for the raw data because in this case the matrices of the same replicate are identical.