gi_list2HTClist {HiCDCPlus} | R Documentation

## gi_list2HTClist

### Description

This function converts a gi_list instance into a HTClist instance compatible for use with the R Bioconductor package HiTC https://bioconductor.org/packages/HiTC/

### Usage

    gi_list2HTClist(gi_list, chrs = NULL)

### Arguments

`gi_list` | List of `GenomicInteractions` objects with a counts column where each object named with chromosomes contains intra-chromosomal interaction information (minimally containing counts and genomic distance in `mcols(gi_list)`— see `?gi_list_validate` for a detailed explanation of valid `gi_list` instances).
`chrs` | select a subset of chromosomes' e.g., c('chr21','chr22'). Defaults to chromosomes in `gi_list`.

### Value

a HTClist instance compatible for use with HiTC

### Examples

    gi_list<-generate_binned_gi_list(50e3,chrs=c('chr22'))
    gi_list<-add_hic_counts(gi_list,
    hic_path<-system.file("extdata", "GSE63525_HMEC_combined_example.hic",
    package = "HiCDCPlus"))
    htc_list<-gi_list2HTClist(gi_list)

[Package HiCDCPlus version 1.0.0 Index]