FisHiCal (version 1.1)

match: in-silico FISH distances and matching Hi-C frequencies with 5% noise

Description

in-silico distances were computed from the random configuration conf. A power law model was then used to generate matching in-silico Hi-C frequencies. Random Noise was further added to long range frequencies to mimic a typical situation for Hi-C data. This data structure is used to illustrate the usage of prepareCalib and calibrate.

Usage

data(match)

Arguments

Format

A data frame with 4950 observations on the following 2 variables.
distances
a numeric vector giving the in-silico FISH distances
.
frequencies
a numeric vector giving the in-silico Hi-C contact frequencies
.

References

Y. Shavit, F.K. Hamey, P. Lio', FisHiCal: an R package for iterative FISH-based calibration of Hi-C data, 2014 (submitted).

Examples

data(match)
plot(match$frequencies ~ match$distances, xlab = "distances", ylab = "frequencies")