bed2mat: converting 3-column contact matrix to squared HiC matrix
In qunhualilab/hicrep: Measuring the reproducibility of Hi-C data
Description
Usage
Arguments
Value
References
Description
converting 3-column contact matrix to squared HiC matrix
Usage
1
bed2mat(bed, resol = "NONE")
Arguments
bed
the 3-column contact matrix; first and second columns are genome coordinates or bin index.
resol
resolution in base pair unit. Set it to "NONE" if the first two columns are bin indices.
Value
a squared HiC matrix that can be recongnized by get.scc.
References
HiCRep: assessing the reproducibility of Hi-C data using a
stratum-adjusted correlation coefficient. Tao Yang, Feipeng Zhang, Galip
Gurkan Yardimci, Fan Song, Ross C Hardison, William Stafford Noble,
Feng Yue, Qunhua Li. Genome Research 2017. doi: 10.1101/gr.220640.117
qunhualilab/hicrep documentation built on Feb. 27, 2020, 9:17 p.m.
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Description Usage Arguments Value References
Description
converting 3-column contact matrix to squared HiC matrix
Usage
1 | bed2mat(bed, resol = "NONE")
|
Arguments
bed |
the 3-column contact matrix; first and second columns are genome coordinates or bin index. |
resol |
resolution in base pair unit. Set it to "NONE" if the first two columns are bin indices. |
Value
a squared HiC matrix that can be recongnized by get.scc.
References
HiCRep: assessing the reproducibility of Hi-C data using a stratum-adjusted correlation coefficient. Tao Yang, Feipeng Zhang, Galip Gurkan Yardimci, Fan Song, Ross C Hardison, William Stafford Noble, Feng Yue, Qunhua Li. Genome Research 2017. doi: 10.1101/gr.220640.117
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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