Package 'DNAZooData'

Title: DNA Zoo data package
Description: DNAZooData is a data package giving programmatic access to genome assemblies and Hi-C contact matrices uniformly processed by the [DNA Zoo Consortium](https://www.dnazoo.org/). The matrices are available in the multi-resolution `.hic` format. A URL to corrected genome assemblies in `.fastq` format is also provided to the end-user.
Authors: Jacques Serizay [aut, cre]
Maintainer: Jacques Serizay <[email protected]>
License: MIT + file LICENSE
Version: 1.12.0
Built: 2026-10-10 11:17:06 UTC
Source: https://github.com/bioc/DNAZooData

Help Index

DNAZooData

Description

Fetches files from the DNAZoo data portal and caches them using the BiocFileCache system.

Arguments

species

Any species processed by the DNA Zoo (check https://www.dnazoo.org/assemblies) for a browser-based explorer.

Value

DNAZooData() returns a HicFile object, which can then be imported in memory using HiCExperiment::import(). Metadata also points to a URL to directly fetch the genome assembly corrected by the DNA Zoo consortium.

Examples

###################################
## Importing DNAZoo `.hic` files ##
###################################

head(DNAZooData())
hf <- DNAZooData(species = 'Anolis_carolinensis')
hf

Manage cache / download files from the DNAZoo data portal

Description

Managing DNAZoo data downloads via the integrated BiocFileCache system.

Usage

DNAZooDataCache(...)

Arguments

...

Arguments passed to internal .setDNAZooDataCache function

Value

BiocFileCache object

Examples

bfc <- DNAZooDataCache()
bfc
BiocFileCache::bfcinfo(bfc)