IJ_ORIG: Tutorial 5 Genomic Contact Data

In SahakyanLab/Optimus: A Parallel General-Purpose Adaptive Optimisation Engine

Tutorial 5 Genomic Contact Data

Description

A dataset containing 734 genomic contact pairs for reproducing Tutorial 5. Here, we take a set of 734 pairs of i and j 40-kilobase DNA regions that are known to be in contact inside a cell. Binning the DNA (e.g., a single chromosome) into 40-kb regions, each region is represented as a single integer that is equal to its end position divided by the length of the region, which is 40 kb. For instance, the 1st region, with start and end positions at the 1st and 40000th nucleotides, respectively, is denoted as 1 (40000th base / 40000 bases = 1). This simplifies the notation for a contact between two regions to a pair of positive integers as in used in this dataset.

Usage

IJ_ORIG

Format

A data frame with 734 rows and 2 variables:

i

Integer representing 40-kb contact region partner of j

j

Integer representing 40-kb contact region partner of i

SahakyanLab/Optimus documentation built on Feb. 3, 2023, 12:34 a.m.