hicrep-package |
HiCRep pipeline calculates reproducibility of Hi-C intrachromosome data |
depth.adj |
Sequencing depth adjustment |
get.scc |
calculate the stratum-adjusted correlation coefficient |
HiCR1 |
HiCR1 |
HiCR2 |
HiCR2 |
hicrep |
HiCRep pipeline calculates reproducibility of Hi-C intrachromosome data |
htrain |
Train the smoothing parameter (neighborhood size). |
MatToVec |
Convert the HiC matrix format to vector format |
prep |
Pre-processing the Hi-C matrices |
smoothMat |
smooth the Hi-C matrix with mean filter |
vstran |
Variance stablization transformation |