find_centromeres: Empirical centromeres

In robinweide/GENOVA: GENOVA: expore the Hi-C

Empirical centromeres

Description

For each chromosome, finds and reports the largest stretch of unused bins as centromeres.

Usage

find_centromeres(MAT, IDX)

Arguments

MAT	The MAT slot of a GENOVA contacts object.
IDX	The IDX slot of a GENOVA contacts object.

Details

A bin is seen as unused when the index has an entry in the IDX argument but does not have entries in the MAT argument.

Value

A data.table with chromosome, start-index and end-index columns.

Examples

## Not run: 
centros <- find_centromeres(exp$MAT, exp$IDX)

## End(Not run)

robinweide/GENOVA documentation built on March 14, 2024, 11:16 p.m.