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Claim

cooler

integration_instructionsResearch softwarekeyboard_double_arrow_right Software 19 Jan 2023Publisher:Zenodo
Authors: Abdennur, Nezar; Goloborodko, Anton; Imakaev, Maxim; Kerpedjiev, Peter; Fudenberg, Geoffrey; Oullette, Scott; Lee, Soohyun; +3 Authors
Code repository: https://github.com/open2c/cooler/tree/v0.10.0

doi: 10.5281/zenodo.597976 , 10.5281/zenodo.11238258 , 10.5281/zenodo.8335796 , 10.5281/zenodo.16294112 , 10.5281/zenodo.12005361 , 10.5281/zenodo.7549530 , 10.5281/zenodo.7549539 , 10.5281/zenodo.12001451 , 10.5281/zenodo.7562897 , 10.5281/zenodo.7992679 , 10.5281/zenodo.11238175 , 10.5281/zenodo.14538582

Abstract

Cooler is a Python support library for .cool files: an efficient storage format for high resolution genomic interaction matrices. The cooler package aims to provide the following functionality: * Build contact matrices at any genomic resolution. * Query contact matrices. * Export and visualize the data. * Perform scalable out-of-core operations on the data. * Provide a clean and well-documented Python API to interact with the data. Follow cooler development on GitHub.

Please cite this software using the metadata from "preferred-citation".

Keywords

Hi-C, sparse, genomics, format, bioinformatics, matrix, Python, out-of-core

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This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
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popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
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influence
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impulse
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