standards > model/format > DOI:10.25504/FAIRsharing.VJDEtl


ready Cooler file format

Abbreviation: .cool


General Information
Cooler is a file format that implements genomically-labeled sparse 2D arrays (matrices) with identical axes in HDF5. It is also the name of the Python package that supports the format. Cooler was designed for the storage and manipulation of extremely large Hi-C datasets at any resolution, but is not limited to Hi-C data in any way. Standard file extensions are .cool for single-resolution cooler files and .mcool for files storing multiple resolutions.

Homepage https://cooler.readthedocs.io/en/latest/datamodel.html

Countries that developed this resource United States

Created in 2016

Taxonomic range

Knowledge Domains 




How to cite this record FAIRsharing.org: .cool; Cooler file format; DOI: https://doi.org/10.25504/FAIRsharing.VJDEtl; Last edited: Sept. 20, 2019, 11:52 a.m.; Last accessed: Oct 20 2019 6:20 p.m.

Publication for citation  Cooler: scalable storage for Hi-C data and other genomically-labeled arrays Abdennur, N and Mirny, L; bioRxiv ; 2019.


This record is maintained by 4DNucleome DCIC  (4dn_dcic)

Record added: April 24, 2019, 4:37 p.m.
Record updated: April 29, 2019, 9:32 a.m. by The FAIRsharing Team.

Show edit history



Support

General

Additional Information


Tools

Schemas

No XSD schemas defined


Access / Retrieve Data


Publications

Cooler: scalable storage for Hi-C data and other genomically-labeled arrays

Abdennur, N and Mirny, L
bioRxiv 2019

Link to Publication

Related Standards

Reporting Guidelines

No guidelines defined

Terminology Artifacts

No semantic standards defined

Identifier Schemas

No identifier schema standards defined

Metrics

No metrics standards defined


Implementing Databases (1)
4DNucleome Data Portal
The 4D Nucleome Data Portal (4DN) hosts data generated by the 4DN Network and other reference nucleomics data sets, and an expanding tool set for open data processing and visualization. It is a platform to search, visualize, and download nucleomics data.

Implementing Policies

This record is not implemented by any policy.


Credit

Record Maintainer

Funds

Maintains

Grant Number(s)