Description Usage Arguments Details Value References Examples

calculate the stratum-adjusted correlation coefficient

1 |

`dat` |
A matrix of four columns. The first two are the mid-point coordinates of two interacting bin. |

`resol` |
An integer indicating the resolution of the Hi-C matrix. |

`max` |
An integer indicating the maximum distance of interaction that is considered. |

The function stratifies the Hi-C reads count according to their interacting distance, calculates the Pearson correlation coefficient for each stratum, then aggregrates them using a weighted average.

A list of results including stratum-specific correlation coefficients, weights, stratum-adjusted correlation coefficient (scc), and the asymptotic standard deviation of scc.

corr A vector that contains the stratum specific Pearson correlation coefficients.

wei A vector that contains the weights for each stratum.

scc Stratum-adjusted correlation coefficients.

std The asymptotic standard deviation of scc.

HiCRep: assessing the reproducibility of Hi-C data using a stratum-adjusted correlation coefficient. Tao Yang, Feipeng Zhang, Galip Gurkan Yardimci, Ross C Hardison, William Stafford Noble, Feng Yue, Qunhua Li. bioRxiv 101386; doi: https://doi.org/10.1101/101386.

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```
[,1]
[1,] 0.9720146
[1] 0.006901945
```

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